Locus 4703

Sequence ID X_DroMel_CAF1
Location 12,240,519 – 12,240,676
Length 157
Max. P 0.911321
window7714 window7715

overview

Window 4

Location 12,240,519 – 12,240,639
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 83.61
Mean single sequence MFE -33.24
Consensus MFE -22.68
Energy contribution -23.47
Covariance contribution 0.78
Combinations/Pair 1.12
Mean z-score -2.65
Structure conservation index 0.68
SVM decision value 1.08
SVM RNA-class probability 0.911321
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12240519 120 - 22224390
AAAACCAUUUGAUAUUAAGAAGUCCAUUCGACCCUAUCAUUUGAUCAAAAGUGGUAGGGUCCUUAUGCUAACGGCCAAUCAAGUUAAUGCACUUACUCAAAAAGGCAAGGAAAAGGUGGG
...((((((((((.....(((.....)))(((((((((((((......)))))))))))))................)))))))...(((.(((.......)))))).......)))... ( -31.10)
>DroSim_CAF1 63812 120 - 1
AAAACCCUUUGAUAUUAAGCAGUCCAUUCGACCCUAUCAUUUGAUCAAAAGUGGUAGGGUCAUUAUACUAACGGCCAAACAAGCUGAAGCACUCACUCAAAAAUGCAAUAAAAAGGUGGG
....((((((..((((..(((........(((((((((((((......)))))))))))))..........((((.......)))).................)))))))..)))).)). ( -32.10)
>DroYak_CAF1 47878 120 - 1
AAGUCCCUACGAUAUUAAGAAGUCCACUCGACCCCAUGAUUUGAUCAAAAGUGGUAGGGUCAUUAUGCUAACCGCGAAUCAAGUGGAUGCAUUCACUCAAAGGGGCACGCAGAAUGUGCG
..((((((..((.........(((((((.(((((.((.((((......)))).)).)))))....(((.....))).....)))))))........))..)))))).((((.....)))) ( -36.53)
>consensus
AAAACCCUUUGAUAUUAAGAAGUCCAUUCGACCCUAUCAUUUGAUCAAAAGUGGUAGGGUCAUUAUGCUAACGGCCAAUCAAGUUGAUGCACUCACUCAAAAAGGCAAGAAAAAGGUGGG
.......................((((..(((((((((((((......)))))))))))))....(((...((((.......))))..)))........................)))). (-22.68 = -23.47 +   0.78)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 5

Location 12,240,559 – 12,240,676
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 83.47
Mean single sequence MFE -31.20
Consensus MFE -24.27
Energy contribution -25.27
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 0.78
SVM decision value 0.53
SVM RNA-class probability 0.772718
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12240559 117 - 22224390
GUGGCGAUGUCCCCA---AAAGUACGAUAUCCUAUACCGGAAAACCAUUUGAUAUUAAGAAGUCCAUUCGACCCUAUCAUUUGAUCAAAAGUGGUAGGGUCCUUAUGCUAACGGCCAAUC
.((((((((((....---.......))))))......((......(((..(.......(((.....)))(((((((((((((......))))))))))))))..)))....))))))... ( -31.70)
>DroSim_CAF1 63852 117 - 1
GUGGCGAUUAUCCCA---UAAGUACGAUAUCCUAUACUGGAAAACCCUUUGAUAUUAAGCAGUCCAUUCGACCCUAUCAUUUGAUCAAAAGUGGUAGGGUCAUUAUACUAACGGCCAAAC
.((((..........---...((..((((((.......((.....))...))))))..)).........(((((((((((((......)))))))))))))............))))... ( -31.10)
>DroYak_CAF1 47918 120 - 1
CUAGCAAUUCGCCUGGUGGUAGUACGAUAUCCUAUACCGGAAGUCCCUACGAUAUUAAGAAGUCCACUCGACCCCAUGAUUUGAUCAAAAGUGGUAGGGUCAUUAUGCUAACCGCGAAUC
......((((((..((((((((...(((.(((......))).))).))))(((........))))))).(((((.((.((((......)))).)).)))))............)))))). ( -30.80)
>consensus
GUGGCGAUUACCCCA___AAAGUACGAUAUCCUAUACCGGAAAACCCUUUGAUAUUAAGAAGUCCAUUCGACCCUAUCAUUUGAUCAAAAGUGGUAGGGUCAUUAUGCUAACGGCCAAUC
.((((....................((((((.......((....))....)))))).............(((((((((((((......)))))))))))))............))))... (-24.27 = -25.27 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:22 2006