Locus 436

Sequence ID X_DroMel_CAF1
Location 1,270,055 – 1,270,153
Length 98
Max. P 0.680189
window670 window671

overview

Window 0

Location 1,270,055 – 1,270,153
Length 98
Sequences 3
Columns 102
Reading direction forward
Mean pairwise identity 96.08
Mean single sequence MFE -36.33
Consensus MFE -35.97
Energy contribution -35.97
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.34
Structure conservation index 0.99
SVM decision value -0.03
SVM RNA-class probability 0.520631
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1270055 98 + 22224390
UCCACCGGGAAGUGGAUCGGGCGAAGCCUAGGAGGCAACUUGGGGAAGGGGAGCAACCGGGUGCUCCGAGUGGGGAAAGUAGUAGCCCUGCUCAUAGA----
(((.(((((..((...(..(((...)))..)...))..))))))))...((((((......))))))(((..(((..........)))..))).....---- ( -36.80)
>DroSec_CAF1 2761 102 + 1
UCCACCGGGAAGUGGAUCGGGCGAAGCCAAGGAGGCAACUUGGGGAAGGGGAGCAACCGGGUGCUCCGAGUGGGGAAAGUAGUAGCCCUGCUCAUACAUGGU
(((.(((((...((..((.(((...)))...))..)).))))))))...((((((......))))))(((..(((..........)))..)))......... ( -36.10)
>DroSim_CAF1 835 102 + 1
UCCACCGGGAAGUGGAUCGGGCGAAGCCAAGGAGGCAACUUGGGGAAGGGGAGCAACCGGGUGCUCCGAGUGGGGAAAGUAGUAGCCCUGCUCAUAGAUGGU
(((.(((((...((..((.(((...)))...))..)).))))))))...((((((......))))))(((..(((..........)))..)))......... ( -36.10)
>consensus
UCCACCGGGAAGUGGAUCGGGCGAAGCCAAGGAGGCAACUUGGGGAAGGGGAGCAACCGGGUGCUCCGAGUGGGGAAAGUAGUAGCCCUGCUCAUAGAUGGU
(((.(((((.......((....)).(((.....)))..))))))))...((((((......))))))(((..(((..........)))..)))......... (-35.97 = -35.97 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 1,270,055 – 1,270,153
Length 98
Sequences 3
Columns 102
Reading direction reverse
Mean pairwise identity 96.08
Mean single sequence MFE -28.73
Consensus MFE -28.70
Energy contribution -28.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.49
Structure conservation index 1.00
SVM decision value 0.30
SVM RNA-class probability 0.680189
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1270055 98 - 22224390
----UCUAUGAGCAGGGCUACUACUUUCCCCACUCGGAGCACCCGGUUGCUCCCCUUCCCCAAGUUGCCUCCUAGGCUUCGCCCGAUCCACUUCCCGGUGGA
----..........((((.................((((((......))))))..........(..(((.....)))..)))))..((((((....)))))) ( -28.50)
>DroSec_CAF1 2761 102 - 1
ACCAUGUAUGAGCAGGGCUACUACUUUCCCCACUCGGAGCACCCGGUUGCUCCCCUUCCCCAAGUUGCCUCCUUGGCUUCGCCCGAUCCACUUCCCGGUGGA
....(((....)))((((.................((((((......))))))..........(..(((.....)))..)))))..((((((....)))))) ( -28.90)
>DroSim_CAF1 835 102 - 1
ACCAUCUAUGAGCAGGGCUACUACUUUCCCCACUCGGAGCACCCGGUUGCUCCCCUUCCCCAAGUUGCCUCCUUGGCUUCGCCCGAUCCACUUCCCGGUGGA
..............((((.................((((((......))))))..........(..(((.....)))..)))))..((((((....)))))) ( -28.80)
>consensus
ACCAUCUAUGAGCAGGGCUACUACUUUCCCCACUCGGAGCACCCGGUUGCUCCCCUUCCCCAAGUUGCCUCCUUGGCUUCGCCCGAUCCACUUCCCGGUGGA
..............((((.................((((((......))))))..........(..(((.....)))..)))))..((((((....)))))) (-28.70 = -28.70 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:44:32 2006