Locus 1742

Sequence ID 3R_DroMel_CAF1
Location 5,026,682 – 5,026,772
Length 90
Max. P 0.671466
window2865

overview

Window 5

Location 5,026,682 – 5,026,772
Length 90
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 78.91
Mean single sequence MFE -22.70
Consensus MFE -12.47
Energy contribution -12.38
Covariance contribution -0.08
Combinations/Pair 1.24
Mean z-score -1.90
Structure conservation index 0.55
SVM decision value 0.29
SVM RNA-class probability 0.671466
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5026682 90 + 27905053
CUGCAUAAUGAUAAAGUCAA----------ACCCA-----UGACCCAGAGGUCUACUUAGUUAAAUCACACAGCUAGGUAG-AAAAUUGGCA-------CAGUAGAUAGGGAC
((((...........((((.----------.....-----))))((((...(((((((((((.........))))))))))-)...))))..-------..))))........ ( -22.10)
>DroPse_CAF1 188652 100 + 1
CUGCAUAAUGAUAAAGUUAU----------GCCUCGUUAGGGACCCCGGGGUCUACUUAGUUAAAUCACAUGACUAAGAAU-CCAAUUGCCACACAGCCGAGUGGG--GAGAC
..(((((((......)))))----------))(((....((((((....))))..((((((((.......))))))))...-)).....((((........)))).--))).. ( -29.70)
>DroSec_CAF1 133174 90 + 1
CUGCAUAAUGAUAAAGUCAA----------ACCCC-----UGACCCAGAGGUCUACUUAGUUAAAUCACACAGCUAGGUAG-AAAAUUGGCA-------GAGUGGAUAGGGAC
((((...........((((.----------.....-----)))).(((...(((((((((((.........))))))))))-)...))))))-------)............. ( -21.70)
>DroSim_CAF1 137719 90 + 1
CUGCAUAAUGAUAAAGUCAA----------ACCCC-----UGACCCAGAGGUCUACUUAGUUAAAUCACACAGCUAGGUAG-AAAAUUGGCA-------GAGUAGAUAGGGAC
((((...........((((.----------.....-----))))((((...(((((((((((.........))))))))))-)...))))..-------..))))........ ( -22.30)
>DroYak_CAF1 138834 90 + 1
CUGCAUAAUGAUAAAGUCAA----------ACCCA-----UGACCCAGAGCUCUACUUAGUUAAAUCACACAGCUAGGUAG-AAAAUUGGCA-------GAGUAGAUAAGGAC
((((...........((((.----------.....-----))))((((...(((((((((((.........))))))))))-)...))))..-------..))))........ ( -21.00)
>DroAna_CAF1 132325 99 + 1
CUGCAUAAUGAUAAACCCAAAAAAGAAAAAAACCA-----GGACCCAGAGGUCUACUUAGUUAAAUCACAUGACUAAAGAGUACAAUUGGCA-------GGGUG--UAGGUAC
((((((..((......((((...............-----(((((....)))))..(((((((.......))))))).........))))))-------..)))--))).... ( -19.40)
>consensus
CUGCAUAAUGAUAAAGUCAA__________ACCCA_____UGACCCAGAGGUCUACUUAGUUAAAUCACACAGCUAGGUAG_AAAAUUGGCA_______GAGUAGAUAGGGAC
((((.....................................((((....))))(((((((((.........))))))))).....................))))........ (-12.47 = -12.38 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:12 2006