Locus 1358

Sequence ID X_DroMel_CAF1
Location 4,066,908 – 4,067,006
Length 98
Max. P 0.980752
window2162 window2163

overview

Window 2

Location 4,066,908 – 4,067,006
Length 98
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 85.40
Mean single sequence MFE -31.93
Consensus MFE -28.20
Energy contribution -28.20
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.88
SVM decision value 0.86
SVM RNA-class probability 0.869018
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4066908 98 + 22224390
GAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCUCCUCU
((.(.((((((.((..(((((((.(.....).))))))).(((.((((((.(((((......)))))....)))))).)))...)))))))).).)). ( -39.40)
>DroSec_CAF1 79756 78 + 1
--------------------UCUUCUGGAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCUCCUCU
--------------------.((((..((...(((((((((..(((((((.(.....).)))))))))..)))))))))..)))).((.....))... ( -28.20)
>DroSim_CAF1 78745 78 + 1
--------------------UCUUCUGGAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCUCCUCU
--------------------.((((..((...(((((((((..(((((((.(.....).)))))))))..)))))))))..)))).((.....))... ( -28.20)
>consensus
____________________UCUUCUGGAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCAGCAGUGGAUCUUCUGGAAGCGGAUCCUCCUCU
.....................((((..((...(((((((((..(((((((.(.....).)))))))))..)))))))))..)))).((.....))... (-28.20 = -28.20 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 4,066,908 – 4,067,006
Length 98
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 85.40
Mean single sequence MFE -31.47
Consensus MFE -27.90
Energy contribution -27.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.79
Structure conservation index 0.89
SVM decision value 1.87
SVM RNA-class probability 0.980752
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4066908 98 - 22224390
AGAGGAGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUC
.((((.(((((((....(((..((((.....(((((..((..(((((.((.....)).)))))..))..)))))..))))..))).))))))).)))) ( -38.60)
>DroSec_CAF1 79756 78 - 1
AGAGGAGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUCCAGAAGA--------------------
.((((.(((((((....(((..((((.....(((((......)))))..))))..))).))))))).)))).......-------------------- ( -27.90)
>DroSim_CAF1 78745 78 - 1
AGAGGAGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUCCAGAAGA--------------------
.((((.(((((((....(((..((((.....(((((......)))))..))))..))).))))))).)))).......-------------------- ( -27.90)
>consensus
AGAGGAGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUCCAGAAGAUCCACUGCUGGAUCCGCUUCCAGAAGA____________________
.((((.(((((((....(((..((((.....(((((......)))))..))))..))).))))))).))))........................... (-27.90 = -27.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:18 2006