Locus 5264

Sequence ID 2R_DroMel_CAF1
Location 17,128,425 – 17,128,532
Length 107
Max. P 0.999930
window8409 window8410

overview

Window 9

Location 17,128,425 – 17,128,532
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 97.76
Mean single sequence MFE -36.65
Consensus MFE -35.80
Energy contribution -35.80
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.92
Structure conservation index 0.98
SVM decision value 4.63
SVM RNA-class probability 0.999930
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17128425 107 + 20766785
UCACCUUCACCGACUCCACGCCUAUGUGCCGGCCACUUAUCUCAUAGUCGAUCGCAUCCGAGGAAGCCACCACAGUGUCCGGCACAAAGGUGGGCGUUAAAUACCGA
...........(((.((.(((((.((((((((.((((.(((........))).((.((....)).))......)))).)))))))).))))))).)))......... ( -36.70)
>DroSec_CAF1 64318 107 + 1
UCACCUUCACUGACUCCACGCCUAUGUGCCGGCCACUUAACUCAUAGUCGAUCGCAUCCGAGGAAGCCACCACAGUGUCCGGCACAAAGGUGGGCGUUAAAUACCGA
..........((((.((.(((((.((((((((.((((..........(((........)))((......))..)))).)))))))).))))))).))))........ ( -37.50)
>DroSim_CAF1 55163 107 + 1
UCACCUUCACUGACUCCACGCCUAUGUGCCGGCCACUUAACUCAUAUUCGAUCGCAUCCGAGGAAGCCACCACAGUGUCCGGCACAAAGGUGGGCGUUAAAUACCGA
..........((((.((.(((((.((((((((.((((.........(((..(((....))).)))........)))).)))))))).))))))).))))........ ( -37.83)
>DroEre_CAF1 69846 107 + 1
UCACCUUCAUCGACUCCACGCCUAUGUGCCGGCCACCUAACUCAUAGUCGAUCGCAUCCGAGGAAGCCACCACAGUGUCCGGCACAAAGGUGGGCGUUAAAUACCGA
...........(((.((.(((((.((((((((.((((((.....)))......((.((....)).)).......))).)))))))).))))))).)))......... ( -35.60)
>DroYak_CAF1 71740 107 + 1
UCACCUUCACCGACUCCACGCCUAUGUGCCGGCCACCUAACUCAUAGUCGAUCGCAUCCGAGGAAGCCACCACAGUGUCCGGCACAAAGGUGGGCGUUAAAUACCGA
...........(((.((.(((((.((((((((.((((((.....)))......((.((....)).)).......))).)))))))).))))))).)))......... ( -35.60)
>consensus
UCACCUUCACCGACUCCACGCCUAUGUGCCGGCCACUUAACUCAUAGUCGAUCGCAUCCGAGGAAGCCACCACAGUGUCCGGCACAAAGGUGGGCGUUAAAUACCGA
...........(((.((.(((((.((((((((.(((...........(((........)))((......))...))).)))))))).))))))).)))......... (-35.80 = -35.80 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 17,128,425 – 17,128,532
Length 107
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 97.76
Mean single sequence MFE -40.74
Consensus MFE -39.94
Energy contribution -39.70
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -1.49
Structure conservation index 0.98
SVM decision value 1.47
SVM RNA-class probability 0.957112
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17128425 107 - 20766785
UCGGUAUUUAACGCCCACCUUUGUGCCGGACACUGUGGUGGCUUCCUCGGAUGCGAUCGACUAUGAGAUAAGUGGCCGGCACAUAGGCGUGGAGUCGGUGAAGGUGA
...........((((((((..((((((((.((((.((((.((.((....)).)).))))...........)))).))))))))..(((.....)))))))..)))). ( -40.50)
>DroSec_CAF1 64318 107 - 1
UCGGUAUUUAACGCCCACCUUUGUGCCGGACACUGUGGUGGCUUCCUCGGAUGCGAUCGACUAUGAGUUAAGUGGCCGGCACAUAGGCGUGGAGUCAGUGAAGGUGA
..(((.......)))((((((((((((((.((((..(((.((.((....)).)).)))(((.....))).)))).)))))))...(((.....)))...))))))). ( -40.90)
>DroSim_CAF1 55163 107 - 1
UCGGUAUUUAACGCCCACCUUUGUGCCGGACACUGUGGUGGCUUCCUCGGAUGCGAUCGAAUAUGAGUUAAGUGGCCGGCACAUAGGCGUGGAGUCAGUGAAGGUGA
..(((.......)))((((((((((((((.((((.((((.((.((....)).)).))))...........)))).)))))))...(((.....)))...))))))). ( -39.70)
>DroEre_CAF1 69846 107 - 1
UCGGUAUUUAACGCCCACCUUUGUGCCGGACACUGUGGUGGCUUCCUCGGAUGCGAUCGACUAUGAGUUAGGUGGCCGGCACAUAGGCGUGGAGUCGAUGAAGGUGA
..(((.......)))((((((((((((((.((((..(((.((.((....)).)).)))(((.....))).)))).)))))))...(((.....)))...))))))). ( -40.90)
>DroYak_CAF1 71740 107 - 1
UCGGUAUUUAACGCCCACCUUUGUGCCGGACACUGUGGUGGCUUCCUCGGAUGCGAUCGACUAUGAGUUAGGUGGCCGGCACAUAGGCGUGGAGUCGGUGAAGGUGA
...........((((((((..((((((((.((((..(((.((.((....)).)).)))(((.....))).)))).))))))))..(((.....)))))))..)))). ( -41.70)
>consensus
UCGGUAUUUAACGCCCACCUUUGUGCCGGACACUGUGGUGGCUUCCUCGGAUGCGAUCGACUAUGAGUUAAGUGGCCGGCACAUAGGCGUGGAGUCGGUGAAGGUGA
..(((.......)))((((((((((((((.((((.((((.((.((....)).)).))))...........)))).)))))))...(((.....)))...))))))). (-39.94 = -39.70 +  -0.24)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:33 2006