Locus 4168

Sequence ID X_DroMel_CAF1
Location 10,927,784 – 10,927,886
Length 102
Max. P 0.847794
window6840 window6841

overview

Window 0

Location 10,927,784 – 10,927,886
Length 102
Sequences 3
Columns 106
Reading direction forward
Mean pairwise identity 94.97
Mean single sequence MFE -17.87
Consensus MFE -17.07
Energy contribution -17.40
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.93
Structure conservation index 0.96
SVM decision value 0.78
SVM RNA-class probability 0.847794
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10927784 102 + 22224390
UUAGCCGCAAUUAAAGCAUUAACAAAGUGCAGCAAAUAAAACAAGUCAAUCGGUUGCCUAAUUAAAAGCAUUUUUAAUUAAGCUCACCAGGACAUGAAACUA----
...............(((((.....)))))...........((.(((....(((.((.(((((((((....))))))))).))..)))..))).))......---- ( -17.30)
>DroSec_CAF1 10779 106 + 1
UUAGCCGCAAUUAAAGCAUAAACAAAGUGCAUCAAAUAAAACAAGUCAAUCGGUUGCCUAAUUAAAAUCCUUUUUAAUUAAGCUCACCAGGACAUGAAACUAAGUA
((((...((......((((.......))))..............(((....(((.((.(((((((((....))))))))).))..)))..))).))...))))... ( -18.80)
>DroSim_CAF1 10547 106 + 1
UUAGCCGCAAUUAAAGCAUAAACAAAGUGCAUCAAAUAAAACAAGUCAAUCGGUUGCCUAAUUAAAAGCCUUUUUAAUUAAGCUCACCAGGACAUGAAACUAAGUA
((((...((......((((.......))))..............(((....(((.((.(((((((((....))))))))).))..)))..))).))...))))... ( -17.50)
>consensus
UUAGCCGCAAUUAAAGCAUAAACAAAGUGCAUCAAAUAAAACAAGUCAAUCGGUUGCCUAAUUAAAAGCCUUUUUAAUUAAGCUCACCAGGACAUGAAACUAAGUA
((((...((......((((.......))))..............(((....(((.((.(((((((((....))))))))).))..)))..))).))...))))... (-17.07 = -17.40 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,927,784 – 10,927,886
Length 102
Sequences 3
Columns 106
Reading direction reverse
Mean pairwise identity 94.97
Mean single sequence MFE -23.60
Consensus MFE -21.50
Energy contribution -21.83
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.91
SVM decision value 0.21
SVM RNA-class probability 0.636155
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10927784 102 - 22224390
----UAGUUUCAUGUCCUGGUGAGCUUAAUUAAAAAUGCUUUUAAUUAGGCAACCGAUUGACUUGUUUUAUUUGCUGCACUUUGUUAAUGCUUUAAUUGCGGCUAA
----......((.(((.((((..((((((((((((....)))))))))))).))))...))).))........((((((....(((((....)))))))))))... ( -26.20)
>DroSec_CAF1 10779 106 - 1
UACUUAGUUUCAUGUCCUGGUGAGCUUAAUUAAAAAGGAUUUUAAUUAGGCAACCGAUUGACUUGUUUUAUUUGAUGCACUUUGUUUAUGCUUUAAUUGCGGCUAA
....((((..((.(((.((((..((((((((((((....)))))))))))).))))...))).........((((.(((.........))).)))).))..)))). ( -22.20)
>DroSim_CAF1 10547 106 - 1
UACUUAGUUUCAUGUCCUGGUGAGCUUAAUUAAAAAGGCUUUUAAUUAGGCAACCGAUUGACUUGUUUUAUUUGAUGCACUUUGUUUAUGCUUUAAUUGCGGCUAA
....((((..((.(((.((((..((((((((((((....)))))))))))).))))...))).........((((.(((.........))).)))).))..)))). ( -22.40)
>consensus
UACUUAGUUUCAUGUCCUGGUGAGCUUAAUUAAAAAGGCUUUUAAUUAGGCAACCGAUUGACUUGUUUUAUUUGAUGCACUUUGUUUAUGCUUUAAUUGCGGCUAA
....((((..((.(((.((((..((((((((((((....)))))))))))).))))...))).........((((.(((.........))).)))).))..)))). (-21.50 = -21.83 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:01 2006