Locus 2973

Sequence ID X_DroMel_CAF1
Location 7,906,965 – 7,907,108
Length 143
Max. P 0.975924
window4881 window4882

overview

Window 1

Location 7,906,965 – 7,907,085
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 91.10
Mean single sequence MFE -28.83
Consensus MFE -21.65
Energy contribution -22.53
Covariance contribution 0.88
Combinations/Pair 1.20
Mean z-score -1.79
Structure conservation index 0.75
SVM decision value 0.18
SVM RNA-class probability 0.622445
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7906965 120 - 22224390
CGAAUUUAACUCUUAUCGGGUGACACGAAAAACCAAAAAAAAAAAUACAAUUCGACUGCAGAAGCAGCAGCUGAAGGCCGCCAAUUGGUGUCGGGAAUUGGAUUUGGAUUAAAUUAAUAU
..(((((((..(..(((.(((..(.(((...(((((..............((((.((((.......)))).))))((...))..))))).))))..))).)))..)..)))))))..... ( -28.30)
>DroSec_CAF1 7598 119 - 1
CGGAUUCAACUAUUUUCGGGUGACACGAAACGCCA-AAAAAAAAAUACAAUUCAACUGCAGAAGCAGCAGCUGAAGGCCGCCAAUUGGUGUCGGGAAUCGGAUUCGGAUUAAAUUAAUAU
(((((((......((((((....).)))))..((.-..............((((.((((.......)))).))))(((.(((....)))))))).....))))))).............. ( -29.70)
>DroSim_CAF1 10732 119 - 1
CGGAUUCAACUCUUUUCGGGUGACACGAAAAGCAA-AAAAAAAAAUACAAUUCAACUGCAGAAGCAGCAGCUGAAGGCCGCCAAUUGGUGUCGGGAAUCGGAUUCGGAUUAAAUUAAUAU
(((((((....((((((((....).)))))))...-..............((((.((((.......)))).))))(((.(((....)))))).......))))))).............. ( -30.40)
>DroYak_CAF1 10870 119 - 1
CGGAUUCAACUCUAUUUGGGUGACACGGAAAACCAAAAAAAAAAAAACAA-UCGACUGCAGAAGCAGCAGCAGAAGGCCGCCAAUUAGAGUCGGGAAUCGGAUUUGGAUUAAAUUGAUAU
(.(((((.((((((....((((....((....))................-((..((((.......))))..))....))))...))))))...))))).)................... ( -26.90)
>consensus
CGGAUUCAACUCUUUUCGGGUGACACGAAAAACCA_AAAAAAAAAUACAAUUCAACUGCAGAAGCAGCAGCUGAAGGCCGCCAAUUGGUGUCGGGAAUCGGAUUCGGAUUAAAUUAAUAU
(((((((.....(((((((....).)))))).((................((((.((((.......)))).))))(((.(((....)))))))).....))))))).............. (-21.65 = -22.53 +   0.88)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 7,907,005 – 7,907,108
Length 103
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 91.73
Mean single sequence MFE -26.50
Consensus MFE -23.39
Energy contribution -23.95
Covariance contribution 0.56
Combinations/Pair 1.14
Mean z-score -2.37
Structure conservation index 0.88
SVM decision value 1.76
SVM RNA-class probability 0.975924
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7907005 103 - 22224390
GCCACCGUUAUUCGCUAGAUCAGCGAAUUUAACUCUUAUCGGGUGACACGAAAAACCAAAAAAAAAAAUACAAUUCGACUGCAGAAGCAGCAGCUGAAGGCCG
(((...((((((((((.....))))))..)))).....((((....).)))......................((((.((((.......)))).))))))).. ( -24.50)
>DroSec_CAF1 7638 102 - 1
GCCACCGUUAUUCGCUAGAUCAGCGGAUUCAACUAUUUUCGGGUGACACGAAACGCCA-AAAAAAAAAUACAAUUCAACUGCAGAAGCAGCAGCUGAAGGCCG
(((.(((((..((....))..)))))..........((((((....).))))).....-..............((((.((((.......)))).))))))).. ( -26.30)
>DroSim_CAF1 10772 102 - 1
GCCACCGUUAUUCGCUAGAUCAGCGGAUUCAACUCUUUUCGGGUGACACGAAAAGCAA-AAAAAAAAAUACAAUUCAACUGCAGAAGCAGCAGCUGAAGGCCG
(((.(((((..((....))..)))))........((((((((....).)))))))...-..............((((.((((.......)))).))))))).. ( -29.60)
>DroYak_CAF1 10910 102 - 1
GCCACCGUUAUUCGCUAAAUCAGCGGAUUCAACUCUAUUUGGGUGACACGGAAAACCAAAAAAAAAAAAACAA-UCGACUGCAGAAGCAGCAGCAGAAGGCCG
(((.((((.(((((((.....)))))))(((.(((.....)))))).))))......................-((..((((.......))))..)).))).. ( -25.60)
>consensus
GCCACCGUUAUUCGCUAGAUCAGCGGAUUCAACUCUUUUCGGGUGACACGAAAAACCA_AAAAAAAAAUACAAUUCAACUGCAGAAGCAGCAGCUGAAGGCCG
(((...((((((((((.....)))))))..)))..(((((((....).))))))...................((((.((((.......)))).))))))).. (-23.39 = -23.95 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:08 2006