Locus 4112

Sequence ID 2R_DroMel_CAF1
Location 13,516,052 – 13,516,155
Length 103
Max. P 0.779682
window6623

overview

Window 3

Location 13,516,052 – 13,516,155
Length 103
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 84.78
Mean single sequence MFE -33.75
Consensus MFE -26.33
Energy contribution -25.72
Covariance contribution -0.61
Combinations/Pair 1.25
Mean z-score -2.40
Structure conservation index 0.78
SVM decision value 0.55
SVM RNA-class probability 0.779682
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13516052 103 + 20766785
CGACGCCAUUUUG-------CCUU--------GGAUUUUGGCGUCAAUGCGCUCGUUGGCAUUUAAAAAGCAGACAGUUUGCUCUAGUUGCCUCGACGCGCAAUUACUUAGAA-ACACA
.(((((((.....-------(...--------.)....)))))))..((((((((..((((.(((...((((((...)))))).))).)))).))).)))))...........-..... ( -35.30)
>DroVir_CAF1 36535 111 + 1
CGACGCCAUUUGGCAUUUAGCUUU--------GCAUUUUGGCGUCAAUGUGCUUGUUGGCAUUUAAAACGCAGACGGUCUGCUCCAGUUGCUUCAGCGCGCAAUUACUUAGAACACACU
.(((((((....(((........)--------))....)))))))..((((((((..((((........((((.....))))......)))).))).)))))................. ( -34.44)
>DroGri_CAF1 32559 110 + 1
CGACGCCAUUUGGCAUUUAGCUUU--------GCAUUUUGGCGUCAAUGUGCUCGUUGGCAUUUAAAACGCAGACAGUUUGCUCCAGUUGCUACUGAGUGCAAUUACUUAGAA-ACUCA
.(((((((....(((........)--------))....)))))))..((..((((.(((((........(((((...)))))......))))).))))..))...........-..... ( -35.34)
>DroWil_CAF1 38006 104 + 1
CGUCGCCAUUUUG-------CCUU-------UGCAUUUUGGCGUCAAUGUGCUCGUUGGCAUUUAAAAAGCAGACAGUUUGCUCUAGUUGCCUCGACGCGCAAUUACUUACAC-ACACA
.(.(((((...((-------(...-------.)))...))))).)..((((((((..((((.(((...((((((...)))))).))).)))).))).)))))...........-..... ( -32.70)
>DroMoj_CAF1 49183 111 + 1
CGACGCCAUUUGGCAUUUAGCUUU--------GCAUUUUGGCGUCAAUGUGCUCGUUGGCAUUUAAAGCGCAGACAGUUUGCUCCAGUUGCCUCAGCGCGCAAUUACUUAGAAUACACA
.(((((((....(((........)--------))....)))))))..(((((.(...((((......(.(((((...))))).)....))))...).)))))................. ( -33.90)
>DroAna_CAF1 66039 111 + 1
CGACGCCAUUUUG-------CUUUGGGUUUUUGGAUUUUGGCGUCAAUGCGCUCGUUGGCAUUUAAAACGCAGACAGUUUGCUCUAGUUGCCCCGGCGCGCAAUUACUUAGAA-ACACA
.(((((((.....-------((..........))....)))))))..((((((((..((((.(((....(((((...)))))..))).)))).))).)))))...........-..... ( -30.80)
>consensus
CGACGCCAUUUGG_______CUUU________GCAUUUUGGCGUCAAUGUGCUCGUUGGCAUUUAAAACGCAGACAGUUUGCUCCAGUUGCCUCGGCGCGCAAUUACUUAGAA_ACACA
.(((((((..............................)))))))..((((((((..((((........(((((...)))))......)))).))).)))))................. (-26.33 = -25.72 +  -0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:06 2006