Locus 4525

Sequence ID X_DroMel_CAF1
Location 11,928,202 – 11,928,373
Length 171
Max. P 0.786407
window7439 window7440

overview

Window 9

Location 11,928,202 – 11,928,293
Length 91
Sequences 3
Columns 91
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -17.00
Consensus MFE -17.00
Energy contribution -17.00
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.70
Structure conservation index 1.00
SVM decision value 0.57
SVM RNA-class probability 0.786407
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11928202 91 + 22224390
GAUGACAUCGUCGACACUUUCAGUUUUUUAACUCAAUUUUCAAUAAAAACAGUGCAGGAAACUUUUCCUCGCUGCCUCACUUUGUUGUUAA
((..(((..((.((.......((((....))))................(((((.(((((....))))))))))..))))..)))..)).. ( -17.00)
>DroSec_CAF1 11412 91 + 1
GAUGACAUCGUCGACACUUUCAGUUUUUUAACUCAAUUUUCAAUAAAAACAGUGCAGGAAACUUUUCCUCGCUGCCUCACUUUGUUGUUAA
((..(((..((.((.......((((....))))................(((((.(((((....))))))))))..))))..)))..)).. ( -17.00)
>DroSim_CAF1 2072 91 + 1
GAUGACAUCGUCGACACUUUCAGUUUUUUAACUCAAUUUUCAAUAAAAACAGUGCAGGAAACUUUUCCUCGCUGCCUCACUUUGUUGUUAA
((..(((..((.((.......((((....))))................(((((.(((((....))))))))))..))))..)))..)).. ( -17.00)
>consensus
GAUGACAUCGUCGACACUUUCAGUUUUUUAACUCAAUUUUCAAUAAAAACAGUGCAGGAAACUUUUCCUCGCUGCCUCACUUUGUUGUUAA
((..(((..((.((.......((((....))))................(((((.(((((....))))))))))..))))..)))..)).. (-17.00 = -17.00 +   0.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 11,928,253 – 11,928,373
Length 120
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.08
Mean single sequence MFE -30.75
Consensus MFE -21.38
Energy contribution -23.12
Covariance contribution 1.75
Combinations/Pair 1.09
Mean z-score -1.95
Structure conservation index 0.70
SVM decision value 0.45
SVM RNA-class probability 0.741950
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11928253 120 - 22224390
GCGGGCGGAAAGAGUUGGACAACAAUGAAAUGCUUUUAGCCUGCGAAACUGCCAACUGAACAGCGCCAAACGAAAUUAAGUUAACAACAAAGUGAGGCAGCGAGGAAAAGUUUCCUGCAC
((((((.(((((.((((.....))))......))))).)))))).....((((((((......((.....))......)))).((......))..))))((.(((((....))))))).. ( -32.10)
>DroVir_CAF1 13454 108 - 1
CCAAGC--AACGAGUUGGACAACAAUGAAAUGCUUUUAGCAUC--GAGCUGCGAGCUGCGCAGCGCCAAGCGAAAUUAAGUUAACAACA--------CAGAAAAAAAAAGUUUUGUGCAC
..((((--(....((((.....))))....)))))(((((...--..((((((.....))))))((...))........)))))...((--------(((((........)))))))... ( -25.30)
>DroSec_CAF1 11463 120 - 1
GCAGGCGGAAAGAGUUGGACAACAAUGAAAUGCUUUUAGCCUGCGAAACUGCCAACUGAACAGCGCCAAACGAAAUUAAGUUAACAACAAAGUGAGGCAGCGAGGAAAAGUUUCCUGCAC
((((((.(((((.((((.....))))......))))).)))))).....((((((((......((.....))......)))).((......))..))))((.(((((....))))))).. ( -32.80)
>DroSim_CAF1 2123 120 - 1
GCAGGCGGAAAGAGUUGGACAACAAUGAAAUGCUUUUAGCCUGCGAAACUGCCAACUGAACAGCGCCAAACGAAAUUAAGUUAACAACAAAGUGAGGCAGCGAGGAAAAGUUUCCUGCAC
((((((.(((((.((((.....))))......))))).)))))).....((((((((......((.....))......)))).((......))..))))((.(((((....))))))).. ( -32.80)
>consensus
GCAGGCGGAAAGAGUUGGACAACAAUGAAAUGCUUUUAGCCUGCGAAACUGCCAACUGAACAGCGCCAAACGAAAUUAAGUUAACAACAAAGUGAGGCAGCGAGGAAAAGUUUCCUGCAC
((((((.(((((.((((.....))))......))))).))))))....(((((((((......((.....))......)))).((......))..)))))..(((((....))))).... (-21.38 = -23.12 +   1.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:16 2006