Locus 277

Sequence ID 3R_DroMel_CAF1
Location 1,076,256 – 1,076,355
Length 99
Max. P 0.944842
window478

overview

Window 8

Location 1,076,256 – 1,076,355
Length 99
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 87.02
Mean single sequence MFE -28.08
Consensus MFE -23.25
Energy contribution -23.31
Covariance contribution 0.06
Combinations/Pair 1.16
Mean z-score -2.20
Structure conservation index 0.83
SVM decision value 1.35
SVM RNA-class probability 0.944842
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1076256 99 + 27905053
AUAGGAGGUGGUGCUUGAUGGAGAGAUGAAUCCCAUUUCUUUUCGUUAGCUUCAUAACUACCUAUUGAGUUACUUGCUAGCAAUCAUUCGAUUU-----GCAAG
.(((.(((((..(((..(((((((((((.....)))))))....((((......))))...))))..)))))))).)))((((((....)).))-----))... ( -26.60)
>DroSec_CAF1 12405 104 + 1
AUUGGGGCUGUCGCUUGUUAGAGGGAUGAAUCCUAUUUCCUUUCGUUAGCCUCAUAACUCUCUAUUGAGUUACUUGCUAGAAAUCAUUCGAUUUGAAAUGCAAG
..((((((((.((...(..((.((((....)))).))..)...)).))))))))((((((......))))))(((((...(((((....))))).....))))) ( -29.90)
>DroSim_CAF1 12541 104 + 1
AUUGGGGCUGUCGCUUGUUAGAGGGAUGAAUCCUAUUUCCUUUCGUUAGCCUCAUAACUCUCUAUUGAGUUACUUGCUAGCAAUCAUUCGAUUUGAAAUGCAAG
..((((((((.((...(..((.((((....)))).))..)...)).))))))))((((((......))))))(((((...(((((....)).)))....))))) ( -29.70)
>DroEre_CAF1 12712 104 + 1
AUUGGGGUUAGUGCUUGAUAGAGGGAUGAAUCCUGUUUCCUUUCUUUAGCCUCAUAACUCUCUAUUGAGUUACUUGCUACCAAUCGUUCGAUUUUAUAUGCAAG
((((((((.((((((..((((((((((((...(((...........)))..))))..))))))))..)).)))).))).))))).................... ( -26.10)
>consensus
AUUGGGGCUGGCGCUUGAUAGAGGGAUGAAUCCUAUUUCCUUUCGUUAGCCUCAUAACUCUCUAUUGAGUUACUUGCUAGCAAUCAUUCGAUUUGAAAUGCAAG
...((((((((((.......((((((...........)))))))))))))))).((((((......))))))(((((....((((....))))......))))) (-23.25 = -23.31 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:19 2006