Locus 61

Sequence ID 3R_DroMel_CAF1
Location 356,324 – 356,511
Length 187
Max. P 0.534025
window99 window100

overview

Window 9

Location 356,324 – 356,443
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -36.63
Consensus MFE -33.39
Energy contribution -33.50
Covariance contribution 0.11
Combinations/Pair 1.03
Mean z-score -1.69
Structure conservation index 0.91
SVM decision value 0.00
SVM RNA-class probability 0.534025
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 356324 119 + 27905053
AGAUGGAGGACGAGCAGAAUUGGCUU-UUUAUUAUGAUGUUGCCAUGAUAAGGUCAAUGCUCCGGUUGAUGUGCCACGUCCCCUUGUAAUUCUCCACAUGUGGAGGAUAAGAAAAAUGUA
....((.(((((((((...((((((.-.((((((((.......))))))))))))))))))).(((......)))..)))))).....((((((((....))))))))............ ( -39.30)
>DroSec_CAF1 32339 120 + 1
AGAUGGCGGACGAGCAGAAUUGGCUUUUUUAUUAUGAUGUUGCCAUGAUAAGGUCAAUGCUCCGGCUGAUGUGCCACGUCCCCUUGUAAUUCGCCACAUGUGGAGGAUAAGAAAAGUGUA
....((.(((((((((...((((((...((((((((.......))))))))))))))))))).(((......)))..)))))).....((((.(((....))).))))............ ( -36.60)
>DroSim_CAF1 30763 120 + 1
AGAUGGCGGACGAGCAGAAUUGGCUUUUUUAUUAUGAUGUUGCCAUGAUAAGGUCAAUGCUCCGGCUGAUGUGGCACGUCCCCUUGUAAUUCGCCACAUGUGGAGGAUAAGAAAAGUGUA
....((.(((((.((...((..(((...((((((((.......))))))))((........)))))..))...)).))))))).....((((.(((....))).))))............ ( -34.00)
>consensus
AGAUGGCGGACGAGCAGAAUUGGCUUUUUUAUUAUGAUGUUGCCAUGAUAAGGUCAAUGCUCCGGCUGAUGUGCCACGUCCCCUUGUAAUUCGCCACAUGUGGAGGAUAAGAAAAGUGUA
....((.(((((((((...((((((...((((((((.......))))))))))))))))))).(((......)))..)))))).....((((.(((....))).))))............ (-33.39 = -33.50 +   0.11)

alignment

Postscript

secondary structure

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dotplot

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Window 0

Location 356,403 – 356,511
Length 108
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 89.27
Mean single sequence MFE -23.70
Consensus MFE -17.62
Energy contribution -18.07
Covariance contribution 0.45
Combinations/Pair 1.04
Mean z-score -2.13
Structure conservation index 0.74
SVM decision value -0.02
SVM RNA-class probability 0.523558
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 356403 108 + 27905053
CCCUUGUAAUUCUCCACAUGUGGAGGAUAAGAAAAAUGUAACAACAAAAACGGAAAUAUGGGGAUAAUUGAUAUAUUCCCUAUACUUUAAAGUGACAUAUAUUAGGUU
.(((.(((((((((((....)))))))).......((((.((..(......)(((.((((((((............)))))))).)))...)).)))).))).))).. ( -25.10)
>DroSec_CAF1 32419 101 + 1
CCCUUGUAAUUCGCCACAUGUGGAGGAUAAGAAAAGUGUAACAACAGGAUGGGAAAUAUGGGGAUAAUUGAUAUAUUCCCUACACUUUAAAUUGGAAUAUA-------
(((((((..(((((.....)))))..))))).((((((((.((......))........(((((((.......))))))))))))))).....))......------- ( -23.00)
>DroSim_CAF1 30843 101 + 1
CCCUUGUAAUUCGCCACAUGUGGAGGAUAAGAAAAGUGUAACAACAGGAUGGGAAAUAUGGGGAUAAUUGAUAUAUUCCCUACACUUUAAAUUGGAAUAUA-------
(((((((..(((((.....)))))..))))).((((((((.((......))........(((((((.......))))))))))))))).....))......------- ( -23.00)
>consensus
CCCUUGUAAUUCGCCACAUGUGGAGGAUAAGAAAAGUGUAACAACAGGAUGGGAAAUAUGGGGAUAAUUGAUAUAUUCCCUACACUUUAAAUUGGAAUAUA_______
..(((((..(((((.....)))))..))))).((((((((....(......).......(((((((.......))))))))))))))).................... (-17.62 = -18.07 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:44 2006