Locus 4312

Sequence ID X_DroMel_CAF1
Location 11,368,766 – 11,368,857
Length 91
Max. P 0.998425
window7088 window7089

overview

Window 8

Location 11,368,766 – 11,368,857
Length 91
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 75.16
Mean single sequence MFE -27.48
Consensus MFE -21.24
Energy contribution -20.80
Covariance contribution -0.44
Combinations/Pair 1.12
Mean z-score -1.95
Structure conservation index 0.77
SVM decision value 1.92
SVM RNA-class probability 0.982649
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11368766 91 + 22224390
----------------UGCUUUGUGGGUCAGCUCAUUGAAAAGUUGACUGCCAAUUGCAGUUAACCAAUUAGCAAUACUCGACUCUU-UGUUGCUGUUGUUGUUUUGU-------
----------------...((.(((((....))))).))...(((((((((.....)))))))))(((.((((((((..((((....-.)))).))))))))..))).------- ( -24.10)
>DroSim_CAF1 10729 85 + 1
----------------UGCUUUGUGGGUCAGCUCAUUGAAAAGUUGACUGCCAAUUGCAGUUAACCAAUUAGCAAUACUCGACUCUU-UGUUGCUGUUGUUG-------------
----------------...((.(((((....))))).))...(((((((((.....)))))))))....((((((((..((((....-.)))).))))))))------------- ( -22.60)
>DroYak_CAF1 34727 98 + 1
----------------UGCUUUGUGGGUCAGCUCAUUGAAAAGUUGACUGCCAAUCGCAGUUAACCAAUUAGCAAUACUCGGCUCUU-UGUUGCUGUUGUUAUUUUGUUGUUGUU
----------------...((.(((((....))))).))...(((((((((.....)))))))))((((.(((((.((.((((....-....))))..))....))))))))).. ( -24.80)
>DroAna_CAF1 21096 101 + 1
UUGUUUGCGGUGUAAGCGCUUUGUGGGUCAGCUCAUUGAAAAGCUGACUGCCAAUUGCAGCUAACCAAUUAGCGAUGGCUGACUGUUGCGCCGCUGCUGGC--------------
..((..(((((((((((((.(((..((((((((........))))))))..)))..)).)))...((.(((((....))))).)).)))))))).))....-------------- ( -38.40)
>consensus
________________UGCUUUGUGGGUCAGCUCAUUGAAAAGUUGACUGCCAAUUGCAGUUAACCAAUUAGCAAUACUCGACUCUU_UGUUGCUGUUGUUG_____________
.................((.(((..((((((((........))))))))..)))..)).......((((.(((((((...........)))))))))))................ (-21.24 = -20.80 +  -0.44)

alignment

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secondary structure

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dotplot

Postscript

Window 9

Location 11,368,766 – 11,368,857
Length 91
Sequences 4
Columns 115
Reading direction reverse
Mean pairwise identity 75.16
Mean single sequence MFE -23.62
Consensus MFE -17.46
Energy contribution -17.77
Covariance contribution 0.31
Combinations/Pair 1.17
Mean z-score -2.42
Structure conservation index 0.74
SVM decision value 3.10
SVM RNA-class probability 0.998425
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11368766 91 - 22224390
-------ACAAAACAACAACAGCAACA-AAGAGUCGAGUAUUGCUAAUUGGUUAACUGCAAUUGGCAGUCAACUUUUCAAUGAGCUGACCCACAAAGCA----------------
-------............((((..((-..(((..(((((((((((((((........)))))))))))..)))))))..)).))))............---------------- ( -19.20)
>DroSim_CAF1 10729 85 - 1
-------------CAACAACAGCAACA-AAGAGUCGAGUAUUGCUAAUUGGUUAACUGCAAUUGGCAGUCAACUUUUCAAUGAGCUGACCCACAAAGCA----------------
-------------......((((..((-..(((..(((((((((((((((........)))))))))))..)))))))..)).))))............---------------- ( -19.20)
>DroYak_CAF1 34727 98 - 1
AACAACAACAAAAUAACAACAGCAACA-AAGAGCCGAGUAUUGCUAAUUGGUUAACUGCGAUUGGCAGUCAACUUUUCAAUGAGCUGACCCACAAAGCA----------------
...................((((..((-..(((..(((((((((((((((........)))))))))))..)))))))..)).))))............---------------- ( -18.90)
>DroAna_CAF1 21096 101 - 1
--------------GCCAGCAGCGGCGCAACAGUCAGCCAUCGCUAAUUGGUUAGCUGCAAUUGGCAGUCAGCUUUUCAAUGAGCUGACCCACAAAGCGCUUACACCGCAAACAA
--------------(((((..(((((....((((.(((....))).))))....)))))..))))).((((((((......)))))))).......(((.......)))...... ( -37.20)
>consensus
_____________CAACAACAGCAACA_AAGAGUCGAGUAUUGCUAAUUGGUUAACUGCAAUUGGCAGUCAACUUUUCAAUGAGCUGACCCACAAAGCA________________
...................((((..((.((((((.((...((((((((((........)))))))))))).))))))...)).))))............................ (-17.46 = -17.77 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:54 2006