Locus 3884

Sequence ID 3L_DroMel_CAF1
Location 11,250,010 – 11,250,136
Length 126
Max. P 0.944142
window6043 window6044

overview

Window 3

Location 11,250,010 – 11,250,100
Length 90
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 76.09
Mean single sequence MFE -23.26
Consensus MFE -15.81
Energy contribution -17.87
Covariance contribution 2.06
Combinations/Pair 1.04
Mean z-score -1.75
Structure conservation index 0.68
SVM decision value 0.75
SVM RNA-class probability 0.840779
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11250010 90 + 23771897
UCACUUGCAUUGGGGCGAUAAGUCGCUAUAUC---------AAGACCCAUAUACAUAGACAUAGA-------UGUCUAUGGUGGGGCUCAGAACUAUUUUUUUUCA
...((((.((...(((((....)))))..)))---------))).(((((...((((((((....-------)))))))))))))..................... ( -26.00)
>DroSec_CAF1 51828 94 + 1
CCACUUGCAUUGGGGCGAUAAGUCGCUAUACC---------AUGUCCCAUAUACAUAGACUCGCGUCUAUCUCGUCUAUGGUGGGGCUCAGAACAAUUUU-UUU--
..........((((((((....)))))...))---------).(((((((...(((((((.............)))))))))))))).............-...-- ( -24.72)
>DroSim_CAF1 53561 95 + 1
CCACUUGCAUUGGGGCGAUAAGUCGCUAUACC---------AUGUCCCAUAUACAUAGACUCGCGUCUAUCUCGUCUAUGGUGGGGCUCAGAACUAUUUUUUUU--
..........((((((((....)))))...))---------).(((((((...(((((((.............)))))))))))))).................-- ( -24.72)
>DroYak_CAF1 55148 88 + 1
CCACUUGCAUUGGGGCGAUAAGUCGCUAUAGUACACUAUAUAUGUCCCACAUAUA---------------CUCGUCUAU-AUGAGGCUCAAAACUAUUUUUUUU--
......((..((((((((....))))(((((....))))).....))))......---------------(((((....-))))))).................-- ( -17.60)
>consensus
CCACUUGCAUUGGGGCGAUAAGUCGCUAUACC_________AUGUCCCAUAUACAUAGACUCGCG_____CUCGUCUAUGGUGGGGCUCAGAACUAUUUUUUUU__
.........(((((((((....)))))................(((((((...(((((((.............))))))))))))))))))............... (-15.81 = -17.87 +   2.06)

alignment

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secondary structure

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dotplot

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Window 4

Location 11,250,042 – 11,250,136
Length 94
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 80.07
Mean single sequence MFE -22.78
Consensus MFE -20.95
Energy contribution -21.29
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.23
Structure conservation index 0.92
SVM decision value 1.34
SVM RNA-class probability 0.944142
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11250042 94 + 23771897
AAGACCCAUAUACAUAGACAUAGA-------UGUCUAUGGUGGGGCUCAGAACUAUUUUUUUUCAUUUUUUUUUGUUUCAGAUAGGGAGACCAGAUGCCGU
.....((((...((((((((....-------))))))))))))(((((.....(((((.....((........))....)))))((....)).)).))).. ( -23.50)
>DroSec_CAF1 51860 88 + 1
AUGUCCCAUAUACAUAGACUCGCGUCUAUCUCGUCUAUGGUGGGGCUCAGAACAAUUUU-UUU------------UUUCAGAUAGGGAGACCAGAUGCCGU
..(((((((...(((((((.............)))))))))))))).............-...------------.........((....))......... ( -22.42)
>DroSim_CAF1 53593 89 + 1
AUGUCCCAUAUACAUAGACUCGCGUCUAUCUCGUCUAUGGUGGGGCUCAGAACUAUUUUUUUU------------UUUCAGAUAGGGAGACCAGAUGCCGU
..(((((((...(((((((.............)))))))))))))).................------------.........((....))......... ( -22.42)
>consensus
AUGUCCCAUAUACAUAGACUCGCGUCUAUCUCGUCUAUGGUGGGGCUCAGAACUAUUUUUUUU____________UUUCAGAUAGGGAGACCAGAUGCCGU
..(((((((...(((((((.............))))))))))))))......................................((....))......... (-20.95 = -21.29 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:05 2006