Locus 3705

Sequence ID 3R_DroMel_CAF1
Location 10,058,099 – 10,058,192
Length 93
Max. P 0.654389
window5938

overview

Window 8

Location 10,058,099 – 10,058,192
Length 93
Sequences 4
Columns 93
Reading direction reverse
Mean pairwise identity 90.68
Mean single sequence MFE -26.93
Consensus MFE -20.11
Energy contribution -20.05
Covariance contribution -0.06
Combinations/Pair 1.17
Mean z-score -1.84
Structure conservation index 0.75
SVM decision value 0.25
SVM RNA-class probability 0.654389
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10058099 93 - 27905053
UUCCAGGACCCAUUGAGACCCACUUUCAUCGCACCCCAAGCGUCUUGAGGAUCCUCAAGCCAACUGAUAGCUUUGACUGCACCCAAGGGAAAU
........(((..(((((.....)))))..(((..(.(((((.((((((....)))))))(....)...)))).)..)))......))).... ( -20.60)
>DroSec_CAF1 126446 93 - 1
UUUCAGUUCCCAUUGAGACCCAGUUUCAUCGCACCCCAAGCGUCUUGAGGAUCCUCCAGCCAACUGAUAGCUUGGACUGCGCCCAAGGGAAAU
......(((((..((((((...)))))).((((..((((((.....(((....)))(((....)))...))))))..)))).....))))).. ( -30.60)
>DroSim_CAF1 127920 93 - 1
UUUCAGUUCUCAUUGAGACCCACUUUCAUCGCACCCCAAGCGUCUUGAGGAUCCUCCAGCCAACUGAUAGCUUGGACUGCGCCCAAGGGAAAU
(((((((....)))))))(((........((((..((((((.....(((....)))(((....)))...))))))..)))).....))).... ( -26.02)
>DroYak_CAF1 132817 92 - 1
UUU-AGGGCUCAUUAAGACCCACUUUCAUCGCACCCCAAGCGUCUUGGGGAUCCUUCGGUCAUCUGAUAGCUUGGACUGCGCCCGAGGGAAAU
...-.(((.((.....)))))............(((((((...))))))).((((((((.((((..(....)..)).))...))))))))... ( -30.50)
>consensus
UUUCAGGUCCCAUUGAGACCCACUUUCAUCGCACCCCAAGCGUCUUGAGGAUCCUCCAGCCAACUGAUAGCUUGGACUGCGCCCAAGGGAAAU
........(((..(((((.....)))))..(((..((((((.....(((....)))(((....)))...))))))..)))......))).... (-20.11 = -20.05 +  -0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:52 2006