Locus 4376

Sequence ID 3R_DroMel_CAF1
Location 11,551,503 – 11,551,596
Length 93
Max. P 0.864385
window7150

overview

Window 0

Location 11,551,503 – 11,551,596
Length 93
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 77.77
Mean single sequence MFE -23.27
Consensus MFE -8.35
Energy contribution -7.94
Covariance contribution -0.41
Combinations/Pair 1.31
Mean z-score -2.82
Structure conservation index 0.36
SVM decision value 0.84
SVM RNA-class probability 0.864385
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11551503 93 + 27905053
UGU-CCA--GCAGGUGUG--AGUUAAAAAUUC--CACACAAGGGUUGCGA---AUAGGGGUAUUAAAAAUGAAACCAAAACAAGCAGCCAACAUCAAAAGCUG
...-.((--((..(((((--(((.....))).--)))))...((((((..---.....(((.(((....))).))).......))))))..........)))) ( -24.54)
>DroVir_CAF1 78409 95 + 1
UGUGACA--CCAGGUGAG--GGCGA----UUCUGUCCGCUAGGGUUGCUCCAGACACAAACAUUAAAAAUGAAACCAAAACAAACAGCAAACAUCAAAAGCUG
((((.((--(...))).(--(((((----(((((.....))))))))).))...))))..........................((((...........)))) ( -18.90)
>DroPse_CAF1 77026 92 + 1
U--------UCAGGUGUGGGGGUUAAAAAUCC--CGCACAAGGGAUGCUUC-CACGCGGGUAUUAAAAAUAAAACCAGAACAAACAGCAAACAUCAAAAGCUG
(--------((..((((((((((.....((((--(......))))))))))-))))).(((.(((....))).))).)))....((((...........)))) ( -27.70)
>DroSec_CAF1 85330 93 + 1
CGU-CCA--GCAGGUGUG--AGUUAAAAAUUC--CACACAAGGGUUGCAA---AAAGGGGUAUUAAAAAUGAAACCAAAACAAACAGCCAACAUCAAAAGCUG
...-.((--((..(((((--(((.....))).--)))))...(((((...---.....(((.(((....))).)))........)))))..........)))) ( -19.89)
>DroAna_CAF1 170960 93 + 1
CGU-GCAAGCCAGGUGUG--AGUUAAAAAUUC--CACACAAGGGUUGUGC---A--CGAGUAUUAAAAAUGAAACCAAAACAAACAGCAAACAUCAAAAGCUG
(((-(((((((..(((((--(((.....))).--)))))...)))).)))---)--))..........................((((...........)))) ( -23.60)
>DroPer_CAF1 77504 92 + 1
U--------UCAGGUGUGGGGGUUAAAAAUCC--CGCACAAGGGUUGCUUC-CACGCGGGUAUUAAAAAUAAAACCAGAACAAACAGCAAACAUCAAAAGCUG
(--------((..((((((((((.......((--(......)))..)))))-))))).(((.(((....))).))).)))....((((...........)))) ( -25.00)
>consensus
UGU__CA__CCAGGUGUG__AGUUAAAAAUUC__CACACAAGGGUUGCUA___ACACGGGUAUUAAAAAUGAAACCAAAACAAACAGCAAACAUCAAAAGCUG
.............(((((..(((.....)))...)))))...((((..........................))))........((((...........)))) ( -8.35 =  -7.94 +  -0.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:34 2006