Locus 4043

Sequence ID 2L_DroMel_CAF1
Location 11,713,008 – 11,713,104
Length 96
Max. P 0.944517
window6368 window6369

overview

Window 8

Location 11,713,008 – 11,713,104
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 85.19
Mean single sequence MFE -15.67
Consensus MFE -13.23
Energy contribution -13.57
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.53
Structure conservation index 0.84
SVM decision value 1.34
SVM RNA-class probability 0.944517
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11713008 96 + 22407834
AGACAAACCCAAACCCAAACCCAAACCCAAACCCAAACCCAAACCUCAACUUCCACUGAAAUGGAACCCUCAUUGCCGUUUGGAGUUUGCCGUUGU
...........................(((...(((((((((((..(((.(((((......)))))......)))..)))))).)))))...))). ( -16.20)
>DroSec_CAF1 179878 78 + 1
AGACAAACCCCAAC------------------CCAAACCCAACCCUCAACUUCCACUGAAAUGGAACCCUCAUUGCCGUUUGGAGUUUGCCGUUGU
..........((((------------------.(((((((((.(..(((.(((((......)))))......)))..).)))).)))))..)))). ( -13.30)
>DroSim_CAF1 172157 78 + 1
AGACAAACCCCAAC------------------CCAAACCCAAACCUCAACUUCCACUGAAAUGGAACCCUCAUUGCCGUUUGGAGUUUGCCGUUGU
..........((((------------------.(((((((((((..(((.(((((......)))))......)))..)))))).)))))..)))). ( -17.50)
>consensus
AGACAAACCCCAAC__________________CCAAACCCAAACCUCAACUUCCACUGAAAUGGAACCCUCAUUGCCGUUUGGAGUUUGCCGUUGU
.................................(((((((((((..(((.(((((......)))))......)))..)))))).)))))....... (-13.23 = -13.57 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 11,713,008 – 11,713,104
Length 96
Sequences 3
Columns 96
Reading direction reverse
Mean pairwise identity 85.19
Mean single sequence MFE -25.80
Consensus MFE -20.47
Energy contribution -20.47
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.79
SVM decision value 0.31
SVM RNA-class probability 0.683124
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11713008 96 - 22407834
ACAACGGCAAACUCCAAACGGCAAUGAGGGUUCCAUUUCAGUGGAAGUUGAGGUUUGGGUUUGGGUUUGGGUUUGGGUUUGGGUUUGGGUUUGUCU
.....(((((((.((((((.((.....((.((((((....)))))).))...))(..(..(..((......))..)..)..)))))))))))))). ( -26.20)
>DroSec_CAF1 179878 78 - 1
ACAACGGCAAACUCCAAACGGCAAUGAGGGUUCCAUUUCAGUGGAAGUUGAGGGUUGGGUUUGG------------------GUUGGGGUUUGUCU
.....((((((((((((.((((.....((.((((((....)))))).))....)))).......------------------.)))))))))))). ( -26.60)
>DroSim_CAF1 172157 78 - 1
ACAACGGCAAACUCCAAACGGCAAUGAGGGUUCCAUUUCAGUGGAAGUUGAGGUUUGGGUUUGG------------------GUUGGGGUUUGUCU
.....((((((((((((.((((((...((.((((((....)))))).)).....)))...))).------------------.)))))))))))). ( -24.60)
>consensus
ACAACGGCAAACUCCAAACGGCAAUGAGGGUUCCAUUUCAGUGGAAGUUGAGGUUUGGGUUUGG__________________GUUGGGGUUUGUCU
.....((((((((((((((..(((...((.((((((....)))))).)).....))).)))))).......................)))))))). (-20.47 = -20.47 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:51 2006