Locus 4678

Sequence ID X_DroMel_CAF1
Location 12,195,610 – 12,195,710
Length 100
Max. P 0.932297
window7675 window7676

overview

Window 5

Location 12,195,610 – 12,195,710
Length 100
Sequences 4
Columns 104
Reading direction forward
Mean pairwise identity 94.35
Mean single sequence MFE -31.23
Consensus MFE -29.09
Energy contribution -29.15
Covariance contribution 0.06
Combinations/Pair 1.03
Mean z-score -1.80
Structure conservation index 0.93
SVM decision value 0.95
SVM RNA-class probability 0.888940
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12195610 100 + 22224390
UGGGGGUCCUGUGCCAGUGCGUUGGUGUG----UGUGCGUCUAAUAGAAAAUGCAAACGUGCGAAAUCGCAUUAAAUGAGCAUUAGCGCAUUGUUGGUUUAGUG
........(((.(((((((((((((((((----(.(((((..........))))).))(((((....))))).......))))))))))))...)))).))).. ( -31.70)
>DroSec_CAF1 21935 104 + 1
GGGAUGUCCUGUGCCAGUGCGUUGGUGUGUGUGUGUGCGUCUAAUAGAAAAUGCAAACGUGCGAAAUCGCAUUAAAUGAGCAUUAGCGCAUUGUUGGUUUAGUG
........(((.((((((((((((((((((.(((((...((.....))..))))).))(((((....))))).......))))))))))))...)))).))).. ( -32.40)
>DroSim_CAF1 23155 104 + 1
GGGGGGUCCUGUGCCAGUGAGUUGGUGUGUGUGUGUGCGUCUAAUAGAAAAUGCAAACGUGCGAAAUCGCAUUAAAUGAGCAUUAGCGCAUUGUUGGUUUAGUG
........(((.(((((..(((((((((((.(((((...((.....))..))))).))(((((....))))).......))))))))...)..))))).))).. ( -26.70)
>DroEre_CAF1 21258 100 + 1
GUGAGGUCCUGUGCCAGUGCGCUGGUGUG----UGUGCGUCUAAUAGAAAAUGCAAACGUGCGAAAUCGCAUUAAAUGAGCAUUAGCGCAUUGUUGGUUUAGUG
........(((.(((((((((((((((((----(.(((((..........))))).))(((((....))))).......))))))))))))...)))).))).. ( -34.10)
>consensus
GGGAGGUCCUGUGCCAGUGCGUUGGUGUG____UGUGCGUCUAAUAGAAAAUGCAAACGUGCGAAAUCGCAUUAAAUGAGCAUUAGCGCAUUGUUGGUUUAGUG
........(((.((((((((((((((((.......(((((..........)))))...(((((....))))).......))))))))))))...)))).))).. (-29.09 = -29.15 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 12,195,610 – 12,195,710
Length 100
Sequences 4
Columns 104
Reading direction reverse
Mean pairwise identity 94.35
Mean single sequence MFE -19.65
Consensus MFE -17.58
Energy contribution -17.57
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.89
SVM decision value 1.22
SVM RNA-class probability 0.932297
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12195610 100 - 22224390
CACUAAACCAACAAUGCGCUAAUGCUCAUUUAAUGCGAUUUCGCACGUUUGCAUUUUCUAUUAGACGCACA----CACACCAACGCACUGGCACAGGACCCCCA
..............((.((((.(((........((((....)))).((.(((.(((......))).))).)----)........))).)))).))((....)). ( -20.30)
>DroSec_CAF1 21935 104 - 1
CACUAAACCAACAAUGCGCUAAUGCUCAUUUAAUGCGAUUUCGCACGUUUGCAUUUUCUAUUAGACGCACACACACACACCAACGCACUGGCACAGGACAUCCC
..............((.((((.(((........((((....)))).((.(((.(((......))).))).))............))).)))).))((....)). ( -20.00)
>DroSim_CAF1 23155 104 - 1
CACUAAACCAACAAUGCGCUAAUGCUCAUUUAAUGCGAUUUCGCACGUUUGCAUUUUCUAUUAGACGCACACACACACACCAACUCACUGGCACAGGACCCCCC
.......((.....((((((((((.......(((((((..........)))))))...)))))).))))..........(((......)))....))....... ( -17.40)
>DroEre_CAF1 21258 100 - 1
CACUAAACCAACAAUGCGCUAAUGCUCAUUUAAUGCGAUUUCGCACGUUUGCAUUUUCUAUUAGACGCACA----CACACCAGCGCACUGGCACAGGACCUCAC
.......((..((.((((((..((.........((((....)))).((.(((.(((......))).))).)----).))..)))))).)).....))....... ( -20.90)
>consensus
CACUAAACCAACAAUGCGCUAAUGCUCAUUUAAUGCGAUUUCGCACGUUUGCAUUUUCUAUUAGACGCACA____CACACCAACGCACUGGCACAGGACCCCCC
.......((.....((((((((((.......(((((((..........)))))))...)))))).))))..........(((......)))....))....... (-17.58 = -17.57 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:47 2006