Locus 4735

Sequence ID 3R_DroMel_CAF1
Location 12,421,987 – 12,422,092
Length 105
Max. P 0.569607
window7776

overview

Window 6

Location 12,421,987 – 12,422,092
Length 105
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.42
Mean single sequence MFE -40.28
Consensus MFE -19.52
Energy contribution -21.75
Covariance contribution 2.23
Combinations/Pair 1.32
Mean z-score -2.01
Structure conservation index 0.48
SVM decision value 0.07
SVM RNA-class probability 0.569607
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12421987 105 - 27905053
CACAUCUUCUAGCUCCAGCUGCUGGAUUAGCACAUCCUCAUCGGCCGAUGAAGGUGGAGACACUGUCUCUGACUGGGC------------CUGAUCCGGCGAUUC---GGCUAGGAGAAA
....((((((((((.....((((((((((((.((((.(((((....))))).))))(((((...))))).......).------------)))))))))))....---)))))))))).. ( -45.50)
>DroSec_CAF1 20878 105 - 1
CACAUCCUCUAGCUCCAGCUGCUGGAUUAACACAUCCUCAUCGGCUGACGAAGCUGGAGGCACUGCCUCUGACUGGGC------------CUGAUCCGGCGAUUC---GGCUAGGAGAAA
....((..(((((..((((((..((((......))))....)))))).(((.((((((..((..((((......))))------------.)).))))))...))---))))))..)).. ( -39.90)
>DroSim_CAF1 20614 105 - 1
CACAUCCUCUAGCUCCAGCUGUUGAAUUAGCACAUCCUCAUCGGCUGAUGAAGCUGGCGGCACUGCCUCUGAUUGGGC------------CUGAUCCGGCGAUUC---AGCUAGGAGAAA
....((..(((((..((((((.(((............))).)))))).(((.(((((...((..((((......))))------------.))..)))))...))---))))))..)).. ( -34.30)
>DroEre_CAF1 21189 117 - 1
CACAUCCUCCAGCUCCAGCUGCUGGAUGAGCACAUCCUCAUCGGCCGACGAAGCCGGAGACACCGCCUCCGACUGCGACUGCGACUGGGACUGAUCCGGCGAUUC---GGCUAGCAGAAA
..(((((..((((....))))..)))))..............((((((....((((((.....((..((((..(((....)))..))))..)).))))))...))---))))........ ( -40.00)
>DroYak_CAF1 21543 105 - 1
CACAUCCUCUAGCUCCAGCUGCUGUAUGAGCACAUCCUCAUCGGCCGAUGAACCUGGAGGCACUGCCUCCGACUGCGC------------CUGAUCCGGCGAUUC---GGCGAGGAGGAA
...........((((..((....))..))))...(((((.(((.((((......(((((((...)))))))....(((------------(......))))..))---))))).))))). ( -40.90)
>DroAna_CAF1 20345 99 - 1
UACAUCCUCCAGCUCCAGUUGCUGGAGCAGCACAUCCUCGUCAGC-------GCUGGCCGCAGUAACUGCGAGU--UC------------CGGCUCCGAGGCUUCCGCGGCCAGCAUAAA
......(((((((.......)))))))..((((......))..))-------(((((((((.((....))((((--..------------((....))..))))..)))))))))..... ( -41.10)
>consensus
CACAUCCUCUAGCUCCAGCUGCUGGAUUAGCACAUCCUCAUCGGCCGAUGAAGCUGGAGGCACUGCCUCCGACUGGGC____________CUGAUCCGGCGAUUC___GGCUAGGAGAAA
....((..((((((.....(((((((((((............(((.......)))((((((...))))))....................))))))))))).......))))))..)).. (-19.52 = -21.75 +   2.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:42 2006