Locus 8015

Sequence ID X_DroMel_CAF1
Location 19,933,012 – 19,933,169
Length 157
Max. P 0.998919
window13157 window13158

overview

Window 7

Location 19,933,012 – 19,933,129
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 76.97
Mean single sequence MFE -28.83
Consensus MFE -19.90
Energy contribution -21.03
Covariance contribution 1.13
Combinations/Pair 1.04
Mean z-score -2.73
Structure conservation index 0.69
SVM decision value 3.28
SVM RNA-class probability 0.998919
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19933012 117 + 22224390
GCCGCGAUUUUUGUGGCAACAUGCGUGCCAACUGGAGGCACAACCACCCAGCUUCCAGCUCCCAGCACCCAGCACCCAGCACCCAGCACCCAGCACCCGGCACCCAACUCAACUCAA
(((((((...)))))))....((.(((((...(((((((...........)))))))(((....((.....)).....((.....))....)))....))))).))........... ( -33.70)
>DroSec_CAF1 46149 89 + 1
GCCGCGACUUUUGUGGCAACAUGCGUGCCAACUGGAGGCACAACCGCCCAGCUUCCAGCUCCCAG----------------------------CACCCGGCACCCAACUCAACUCAA
(((((((...)))))))....((.(((((...(((((((...........)))))))((.....)----------------------------)....))))).))........... ( -30.00)
>DroSim_CAF1 38173 89 + 1
GCCGCGACUUUUGUGGCAACAUGCGUGCCAACUGGAGGCACAACCGCCCAGCUUCCAGCUCCCAG----------------------------CACCCGGCACCCAACUCAACUCAA
(((((((...)))))))....((.(((((...(((((((...........)))))))((.....)----------------------------)....))))).))........... ( -30.00)
>DroYak_CAF1 41542 108 + 1
--CGCGAUUUUUGUGGCAACAUGCGUGCCAACUGGGGGCACAACCACCCAGCUCGCAACACCCAG-------CACACAACACCCAACACCCAGCAUACAACACCCAACUCAACUCAG
--.((((......(((((.......))))).(((((((.....)).))))).)))).........-------............................................. ( -21.60)
>consensus
GCCGCGACUUUUGUGGCAACAUGCGUGCCAACUGGAGGCACAACCACCCAGCUUCCAGCUCCCAG____________________________CACCCGGCACCCAACUCAACUCAA
(((((((...)))))))....((.(((((..((((((((...........))))))))(.....).................................))))).))........... (-19.90 = -21.03 +   1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 19,933,052 – 19,933,169
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 78.48
Mean single sequence MFE -24.62
Consensus MFE -14.48
Energy contribution -14.85
Covariance contribution 0.37
Combinations/Pair 1.13
Mean z-score -2.13
Structure conservation index 0.59
SVM decision value 0.81
SVM RNA-class probability 0.857139
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19933052 117 + 22224390
CAACCACCCAGCUUCCAGCUCCCAGCACCCAGCACCCAGCACCCAGCACCCAGCACCCGGCACCCAACUCAACUCAAAUAAAUGCCGGGGCUUUAGUGUUAAUGAGGCAAUGCGUCA
..........(((((..(((....((.....))....)))....(((((..(((.(((((((....................))))))))))...)))))...)))))......... ( -30.85)
>DroSec_CAF1 46189 89 + 1
CAACCGCCCAGCUUCCAGCUCCCAG----------------------------CACCCGGCACCCAACUCAACUCAAAUAAAUGCCGGGGCUUUAGUGUUAAUGAGGCAAUGUGUCA
.....(((((.......(((...((----------------------------(.(((((((....................))))))))))..))).....)).)))......... ( -23.95)
>DroSim_CAF1 38213 89 + 1
CAACCGCCCAGCUUCCAGCUCCCAG----------------------------CACCCGGCACCCAACUCAACUCAAAUAAAUGCCGGGGCUUUAGUGUUAAUGAGGCAAUGCGUCA
....(((...(((((.(((.(..((----------------------------(.(((((((....................))))))))))...).)))...)))))...)))... ( -25.85)
>DroYak_CAF1 41580 110 + 1
CAACCACCCAGCUCGCAACACCCAG-------CACACAACACCCAACACCCAGCAUACAACACCCAACUCAACUCAGAUAAAUGCCGGGGCUUUAGUGUUAAUGAGGCAAUGCGUCA
.............((((...((((.-------.....(((((......(((.((((.........................)))).)))......)))))..)).))...))))... ( -17.81)
>consensus
CAACCACCCAGCUUCCAGCUCCCAG____________________________CACCCGGCACCCAACUCAACUCAAAUAAAUGCCGGGGCUUUAGUGUUAAUGAGGCAAUGCGUCA
..........((...........................................(((((((....................)))))))((((((.......))))))...)).... (-14.48 = -14.85 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:20 2006