Locus 9397

Sequence ID 3R_DroMel_CAF1
Location 24,917,577 – 24,917,720
Length 143
Max. P 0.951133
window15050 window15051

overview

Window 0

Location 24,917,577 – 24,917,683
Length 106
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 93.95
Mean single sequence MFE -19.36
Consensus MFE -15.10
Energy contribution -15.50
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.56
Structure conservation index 0.78
SVM decision value -0.03
SVM RNA-class probability 0.517816
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24917577 106 - 27905053
GUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAAGACAAGCCAUGCUCUGCUGCAAAUACA-------CAAUGA
....((((((......))))))((((((((((....(......)..)))))))((((.(.((.(((..............))).)).).)))).....))-------)..... ( -22.84)
>DroSec_CAF1 30759 101 - 1
GUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAAGACAAGCCAUG-----CUGCAAAUACA-------CAAUGA
(((..(((((.......(((((((.(((((((....(......)..)))))))))).))))((.((.........))..)))))-----)).....))).-------...... ( -18.40)
>DroSim_CAF1 26488 101 - 1
GUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUACGGCAGGACAGGAUGAGAAUAAGACAAGCCAUG-----CUGCAAAUACA-------CAAUGA
(((.((((((......)))))).)))...((((.(.((........(((....))).....(..(.......)..)...)).).-----)))).......-------...... ( -18.60)
>DroEre_CAF1 29431 108 - 1
GUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAAGACAAGGCAUG-----CUGCAAAUACACAGUACACAAUGA
(((.((((((......))))))((((((((((....(......)..)))))))....(.(((.(((..............))).-----)))).....)))..)))....... ( -18.54)
>DroYak_CAF1 29819 101 - 1
GUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAAGACAAGCCAUG-----CUGCAAAUACA-------CAAUAA
(((..(((((.......(((((((.(((((((....(......)..)))))))))).))))((.((.........))..)))))-----)).....))).-------...... ( -18.40)
>consensus
GUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAAGACAAGCCAUG_____CUGCAAAUACA_______CAAUGA
(((.((((((......)))))).)))((((((....(......)..)))))).((((......(((..............)))......)))).................... (-15.10 = -15.50 +   0.40)

alignment

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secondary structure

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dotplot

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Window 1

Location 24,917,610 – 24,917,720
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 98.91
Mean single sequence MFE -28.60
Consensus MFE -27.68
Energy contribution -27.52
Covariance contribution -0.16
Combinations/Pair 1.03
Mean z-score -1.61
Structure conservation index 0.97
SVM decision value 1.41
SVM RNA-class probability 0.951133
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24917610 110 - 27905053
CCUCGCCUCCUUCUCCAUUAGUCGCACGCGUUUAUAAGUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAA
.(((((((((((((....((.((((((((........))..((((((......)))))))))).)).))))))))).......(((....))).....)).))))..... ( -27.40)
>DroSec_CAF1 30787 110 - 1
CCUCGCCUCCUCCUCCAUUAGUCGCACGCGUUUAUAAGUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAA
.(((((((..((((((.......((((((........))..((((((......))))))))))((((((....(......)..)))))))).)))).))).))))..... ( -28.50)
>DroSim_CAF1 26516 110 - 1
CCUCGCCUCCUCCUCCAUUAGUCGCACGCGUUUAUAAGUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUACGGCAGGACAGGAUGAGAAUAA
.(((((((((((((((..((.((((((((........))..((((((......)))))))))).)).)))).)))).......(((....))))))..)).))))..... ( -30.10)
>DroEre_CAF1 29466 110 - 1
CCUCGCCUCCUCCUCCAUUAGUCGCACGCGUUUAUAAGUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAA
.(((((((..((((((.......((((((........))..((((((......))))))))))((((((....(......)..)))))))).)))).))).))))..... ( -28.50)
>DroYak_CAF1 29847 110 - 1
CCUCGCCUCCUCCUCCAUUAGUCGCACGCGUUUAUAAGUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAA
.(((((((..((((((.......((((((........))..((((((......))))))))))((((((....(......)..)))))))).)))).))).))))..... ( -28.50)
>consensus
CCUCGCCUCCUCCUCCAUUAGUCGCACGCGUUUAUAAGUAGAAGCAUAAAAAAAUGUUUGUGCAGAGUAGGAAGGAAAAACAAUGCUCUGGCAGGACAGGAUGAGAAUAA
.(((((((((((((((..((.((((((((........))..((((((......)))))))))).)).)))).)))).......(((....))))))..)).))))..... (-27.68 = -27.52 +  -0.16)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:33:42 2006