Locus 9428

Sequence ID 3R_DroMel_CAF1
Location 24,975,648 – 24,975,752
Length 104
Max. P 0.703714
window15104

overview

Window 4

Location 24,975,648 – 24,975,752
Length 104
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 78.31
Mean single sequence MFE -29.55
Consensus MFE -19.84
Energy contribution -20.48
Covariance contribution 0.64
Combinations/Pair 1.24
Mean z-score -1.36
Structure conservation index 0.67
SVM decision value 0.36
SVM RNA-class probability 0.703714
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24975648 104 - 27905053
CACGCUGCUCACGGAAACGUACAAGGUGCCGCCCAAGUGCAUCCUGGGCCUGGAAUUGGCCAAGGACGGCAAGAAGAAUAAGAAGAAGUGAG-CCGGACAAU-----------A-AA-
..((..(((((((....)........((((((......)).((((.((((.......)))).)))).))))................)))))-)))......-----------.-..- ( -33.30)
>DroVir_CAF1 2397 113 - 1
CACGCUACUCACGGAAACCUACAAGGUGCCACCCAAGUGUAUAUUGGGCCUCGAAUUGGCCAAAGAUGGCAAGAAG---AAGCGCAAGUGAU-GAAGUCACUAAACAAUGCAUAUAA-
...(((.(((......(((.....)))((((..(((.......)))((((.......)))).....))))..).))---.)))(((((((((-...))))))......)))......- ( -26.40)
>DroEre_CAF1 2879 112 - 1
CACACUGCUCACGGAAACGUACAAGGUGCCGCCCAAGUGCAUCCUGGGCCUGGAACUGGCCAAGGACGGCAAGAAGCAUAAGAAGAAGUGAA-CCGGACAAU---AUAUGAAUA-AA-
..((((..(((((....)))......((((((......)).((((.((((.......)))).)))).))))..........))...))))..-.........---.........-..- ( -30.60)
>DroWil_CAF1 2245 106 - 1
CACCCUGCUGACGGAAACGUAUAAAGUGCCGCCCAAGUGUAUUCUAGGACUGGAGCUGGCCAAAGAUGGCAAGAAAAACAAGCGGAAAUGAGGCCACUCAAU-----------A-AAC
......(((.(((....)))....))).(((((((.((.(......).)))))..((.((((....)))).))........))))...((((....))))..-----------.-... ( -26.30)
>DroYak_CAF1 2848 112 - 1
CACACUGCUCACGGAAACGUACAAGGUGCCGCCCAAGUGCAUCCUGGGCCUGGAACUGGCCAAGGACGGCAAGAAGCAUAAGAAGAAGUGAA-CCGGACAAU---AAUUGAAUA-AA-
..((((..(((((....)))......((((((......)).((((.((((.......)))).)))).))))..........))...))))..-.........---.........-..- ( -30.60)
>DroAna_CAF1 2688 101 - 1
CACGCUGCUGACCGAAACGUACAAGGUGCCGCCCAAGUGCAUCCUCGGCCUGGAGCUGGCCAAGGACGGCAAGAAG---AAGCGAAAAUAGA-CCGGAUAAU-----------A-AA-
..((((.((..(((....((((..((......))..)))).((((.((((.......)))).)))))))..))...---.))))........-.........-----------.-..- ( -30.10)
>consensus
CACGCUGCUCACGGAAACGUACAAGGUGCCGCCCAAGUGCAUCCUGGGCCUGGAACUGGCCAAGGACGGCAAGAAG_AUAAGAAGAAGUGAA_CCGGACAAU___________A_AA_
..((((....(((....)))......((((((......)).((((.((((.......)))).)))).))))...............))))............................ (-19.84 = -20.48 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:34:29 2006