Locus 7586

Sequence ID 3L_DroMel_CAF1
Location 20,384,341 – 20,384,460
Length 119
Max. P 0.926970
window12324 window12325

overview

Window 4

Location 20,384,341 – 20,384,460
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -24.60
Consensus MFE -24.10
Energy contribution -24.43
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.98
SVM decision value 0.43
SVM RNA-class probability 0.731567
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20384341 119 + 23771897
GUUCAACAAAUGUCCAGUGGUAAUCAAACUUACUUGCUAAGCAUAUAUUUAAGCGUUAAUAAAUACACGUUUAUAAUGCUAACAGACUUUAGUUAGCGUGUG-GCUUAGAUCACUAAAUA
...............((((((...(((......)))((((((.......(((((((..........)))))))..((((((((........))))))))...-))))))))))))..... ( -25.50)
>DroSim_CAF1 1768 119 + 1
GUUCAACAAAUGUCCAGUGGUAAUCAAACUUACUUGCUAAGCAUAUAUUUAAGCGUUAAUAAAUACACGUUUAUAAUGCUAACAGACUUUAGUUAGCGUGUG-GCUUAGAUCACUAAAUA
...............((((((...(((......)))((((((.......(((((((..........)))))))..((((((((........))))))))...-))))))))))))..... ( -25.50)
>DroYak_CAF1 14993 120 + 1
GUUCAACAAAUGUCCAAUGGUAAUCAAACUUACUUGCUAAGCAUAUAUUUAAGCGUUAAUAAAUACACGUUUAUAAAGCUAACAGACUUUAGUUAGCGUGUGGGCUUAGAUCACUAAAUA
..................(((((......)))))..((((((.(((((.(((((((..........)))))))....((((((........))))))))))).))))))........... ( -22.80)
>consensus
GUUCAACAAAUGUCCAGUGGUAAUCAAACUUACUUGCUAAGCAUAUAUUUAAGCGUUAAUAAAUACACGUUUAUAAUGCUAACAGACUUUAGUUAGCGUGUG_GCUUAGAUCACUAAAUA
...............((((((...(((......)))((((((.(((((.(((((((..........)))))))....((((((........))))))))))).))))))))))))..... (-24.10 = -24.43 +   0.33)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 20,384,341 – 20,384,460
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -26.97
Consensus MFE -26.25
Energy contribution -26.03
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.20
Structure conservation index 0.97
SVM decision value 1.18
SVM RNA-class probability 0.926970
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20384341 119 - 23771897
UAUUUAGUGAUCUAAGC-CACACGCUAACUAAAGUCUGUUAGCAUUAUAAACGUGUAUUUAUUAACGCUUAAAUAUAUGCUUAGCAAGUAAGUUUGAUUACCACUGGACAUUUGUUGAAC
..(((((((..((((((-.....((((((........)))))).........(((((((((........)))))))))))))))...((((......)))))))))))............ ( -27.50)
>DroSim_CAF1 1768 119 - 1
UAUUUAGUGAUCUAAGC-CACACGCUAACUAAAGUCUGUUAGCAUUAUAAACGUGUAUUUAUUAACGCUUAAAUAUAUGCUUAGCAAGUAAGUUUGAUUACCACUGGACAUUUGUUGAAC
..(((((((..((((((-.....((((((........)))))).........(((((((((........)))))))))))))))...((((......)))))))))))............ ( -27.50)
>DroYak_CAF1 14993 120 - 1
UAUUUAGUGAUCUAAGCCCACACGCUAACUAAAGUCUGUUAGCUUUAUAAACGUGUAUUUAUUAACGCUUAAAUAUAUGCUUAGCAAGUAAGUUUGAUUACCAUUGGACAUUUGUUGAAC
......((((((.((((..((..((((((........))))))....(((.((((((((((........)))))))))).)))....))..))))))))))..((.(((....))).)). ( -25.90)
>consensus
UAUUUAGUGAUCUAAGC_CACACGCUAACUAAAGUCUGUUAGCAUUAUAAACGUGUAUUUAUUAACGCUUAAAUAUAUGCUUAGCAAGUAAGUUUGAUUACCACUGGACAUUUGUUGAAC
..(((((((..((((((......((((((........)))))).........(((((((((........)))))))))))))))...((((......)))))))))))............ (-26.25 = -26.03 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:54 2006