Locus 4573

Sequence ID 3R_DroMel_CAF1
Location 12,072,111 – 12,072,265
Length 154
Max. P 0.737629
window7490 window7491

overview

Window 0

Location 12,072,111 – 12,072,228
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.48
Mean single sequence MFE -39.23
Consensus MFE -28.79
Energy contribution -29.35
Covariance contribution 0.56
Combinations/Pair 1.11
Mean z-score -1.89
Structure conservation index 0.73
SVM decision value -0.08
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12072111 117 - 27905053
UUCACCAGCGGGACGAAACAAAAGUCGUGACUGGGACUCAAAUCGCUCAUGCGACGCGGUGCCAUCGCCCGUCCCCUUUCGUGGCAGU---CUUUUGUUUACAUUUUUAGAAGACUGGUA
.((((.((.((((((..((....)).((((.(((.(((....((((....))))...))).))))))).))))))))...))))((((---((((((..........))))))))))... ( -39.30)
>DroSim_CAF1 9089 115 - 1
UUCACCUGCGGGACGACA--AAAGUCGUGACUGGGACUCAAAUCGCUCAUGCGACGCGGUGCCAUCGCCCGUCCCCUUUCGUGGCAGU---CUUUUGUUUACAUUUUUAGAAGACUGGUA
.((((..(.((((((((.--...)))((((.(((.(((....((((....))))...))).)))))))..))))))....))))((((---((((((..........))))))))))... ( -41.00)
>DroEre_CAF1 10654 117 - 1
UUCACCUGCGA-CUGACA--CAAGUCGUGACUGGGACCCAAAUCGCUCAUGCGACGCGGUGCCAUCGCACGUCCCCUUUCGUAGCAGUCGUCUUUUGUUUACAUUUUUAGAAGACUGGUA
...(((.((((-((....--..))))))((((((.(((....((((....))))...))).))...(((((........))).))))))((((((((..........)))))))).))). ( -38.00)
>DroYak_CAF1 10850 115 - 1
UUCACCUGCGGGACGACA--CAAGUCGUGACUGGGUCCCAAAUCGCUCAUGCGACGCGGUGCCAUCGCCCGUCCUCUUUCGUGGCAGU---CUUUUGUUUACAUUUUUAGAAGACUGGUA
.((((....((((((((.--...)))((((...((..((...((((....))))...))..)).))))..))))).....))))((((---((((((..........))))))))))... ( -38.60)
>consensus
UUCACCUGCGGGACGACA__AAAGUCGUGACUGGGACCCAAAUCGCUCAUGCGACGCGGUGCCAUCGCCCGUCCCCUUUCGUGGCAGU___CUUUUGUUUACAUUUUUAGAAGACUGGUA
.....((((((((((((......)))))....(((((.....((((....)))).(((((...)))))..)))))..)))))))((((...((((((..........))))))))))... (-28.79 = -29.35 +   0.56)

alignment

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secondary structure

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dotplot

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Window 1

Location 12,072,148 – 12,072,265
Length 117
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 90.01
Mean single sequence MFE -37.30
Consensus MFE -30.61
Energy contribution -31.80
Covariance contribution 1.19
Combinations/Pair 1.12
Mean z-score -1.67
Structure conservation index 0.82
SVM decision value 0.44
SVM RNA-class probability 0.737629
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12072148 117 - 27905053
UAGCAGGUCCAUAACUUAGU---UUGGAUUUUUAUCCUGUUUCACCAGCGGGACGAAACAAAAGUCGUGACUGGGACUCAAAUCGCUCAUGCGACGCGGUGCCAUCGCCCGUCCCCUUUC
.((((((((((.........---.)))).......)))))).....((.((((((..((....)).((((.(((.(((....((((....))))...))).))))))).))))))))... ( -33.51)
>DroSim_CAF1 9126 115 - 1
UAGCAGGUCCAUAACUUAGU---UUGGAUUUCUUUCCUGUUUCACCUGCGGGACGACA--AAAGUCGUGACUGGGACUCAAAUCGCUCAUGCGACGCGGUGCCAUCGCCCGUCCCCUUUC
..((((((....(((.....---..(((......))).)))..))))))((((((((.--...)))((((.(((.(((....((((....))))...))).)))))))..)))))..... ( -40.00)
>DroEre_CAF1 10694 117 - 1
UAGCAGGUCCAUUACUUAGUAGGUUGGAUUUCUUUCUUGUUUCACCUGCGA-CUGACA--CAAGUCGUGACUGGGACCCAAAUCGCUCAUGCGACGCGGUGCCAUCGCACGUCCCCUUUC
..((.(((((.((((...((((((..(((.........)))..))))))((-((....--..))))))))...)))))....((((....)))).)).((((....)))).......... ( -37.40)
>DroYak_CAF1 10887 118 - 1
UAGCAGGUCCAUAACUUAGUAGGAUGCAUUUCUUUCCUGUUUCACCUGCGGGACGACA--CAAGUCGUGACUGGGUCCCAAAUCGCUCAUGCGACGCGGUGCCAUCGCCCGUCCUCUUUC
..((((((....(((.....((((......))))....)))..))))))((((((((.--...)))((((...((..((...((((....))))...))..)).))))..)))))..... ( -38.30)
>consensus
UAGCAGGUCCAUAACUUAGU___UUGGAUUUCUUUCCUGUUUCACCUGCGGGACGACA__AAAGUCGUGACUGGGACCCAAAUCGCUCAUGCGACGCGGUGCCAUCGCCCGUCCCCUUUC
..((((((....(((..........(((......))).)))..))))))((((((((......)))((((.(((.(((....((((....))))...))).)))))))..)))))..... (-30.61 = -31.80 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:05 2006