Locus 7883

Sequence ID 3L_DroMel_CAF1
Location 21,033,303 – 21,033,463
Length 160
Max. P 0.862605
window12827 window12828

overview

Window 7

Location 21,033,303 – 21,033,423
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 100.00
Mean single sequence MFE -49.30
Consensus MFE -49.30
Energy contribution -49.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.87
Structure conservation index 1.00
SVM decision value 0.83
SVM RNA-class probability 0.862605
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21033303 120 + 23771897
GAAAUAUCAUAUAUCCCGAGUCGUACAUCCAAAAGUCCUCGGGCGUGUGGCCGGGCUUGGUCAGCUGAAUGGCCAGGCAGCGCUGCAAGAUCAGACGGCAGCGCUGUGGACCACCGGGUG
....((((......((((((....((........)).))))))((.(((((((.(((((((((......)))))))))((((((((...........)))))))).))).)))))))))) ( -49.30)
>DroSec_CAF1 88429 120 + 1
GAAAUAUCAUAUAUCCCGAGUCGUACAUCCAAAAGUCCUCGGGCGUGUGGCCGGGCUUGGUCAGCUGAAUGGCCAGGCAGCGCUGCAAGAUCAGACGGCAGCGCUGUGGACCACCGGGUG
....((((......((((((....((........)).))))))((.(((((((.(((((((((......)))))))))((((((((...........)))))))).))).)))))))))) ( -49.30)
>DroEre_CAF1 10085 120 + 1
GAAAUAUCAUAUAUCCCGAGUCGUACAUCCAAAAGUCCUCGGGCGUGUGGCCGGGCUUGGUCAGCUGAAUGGCCAGGCAGCGCUGCAAGAUCAGACGGCAGCGCUGUGGACCACCGGGUG
....((((......((((((....((........)).))))))((.(((((((.(((((((((......)))))))))((((((((...........)))))))).))).)))))))))) ( -49.30)
>consensus
GAAAUAUCAUAUAUCCCGAGUCGUACAUCCAAAAGUCCUCGGGCGUGUGGCCGGGCUUGGUCAGCUGAAUGGCCAGGCAGCGCUGCAAGAUCAGACGGCAGCGCUGUGGACCACCGGGUG
....((((......((((((....((........)).))))))((.(((((((.(((((((((......)))))))))((((((((...........)))))))).))).)))))))))) (-49.30 = -49.30 +   0.00)

alignment

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secondary structure

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dotplot

Postscript

Window 8

Location 21,033,343 – 21,033,463
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.89
Mean single sequence MFE -43.50
Consensus MFE -43.50
Energy contribution -43.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.62
Structure conservation index 1.00
SVM decision value 0.45
SVM RNA-class probability 0.742016
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21033343 120 - 23771897
CCCGCCAGCAGAAAGGCACCAACAGAAAUGGGCACCAAGUCACCCGGUGGUCCACAGCGCUGCCGUCUGAUCUUGCAGCGCUGCCUGGCCAUUCAGCUGACCAAGCCCGGCCACACGCCC
...(((........)))............((((.....(((((..(((((((..(((((((((...........)))))))))...)))))))..).))))...))))(((.....))). ( -43.50)
>DroSec_CAF1 88469 120 - 1
CCCGCCAGCAGAAAGGCACCAACAGAAAUGGGCACCAAGUCACCCGGUGGUCCACAGCGCUGCCGUCUGAUCUUGCAGCGCUGCCUGGCCAUUCAGCUGACCAAGCCCGGCCACACGCCC
...(((........)))............((((.....(((((..(((((((..(((((((((...........)))))))))...)))))))..).))))...))))(((.....))). ( -43.50)
>DroEre_CAF1 10125 120 - 1
CCCGCCACCAGAACGGCACCAACAGAAAUGGGCACCAAGUCACCCGGUGGUCCACAGCGCUGCCGUCUGAUCUUGCAGCGCUGCCUGGCCAUUCAGCUGACCAAGCCCGGCCACACGCCC
...(((........)))............((((.....(((((..(((((((..(((((((((...........)))))))))...)))))))..).))))...))))(((.....))). ( -43.50)
>consensus
CCCGCCAGCAGAAAGGCACCAACAGAAAUGGGCACCAAGUCACCCGGUGGUCCACAGCGCUGCCGUCUGAUCUUGCAGCGCUGCCUGGCCAUUCAGCUGACCAAGCCCGGCCACACGCCC
...(((........)))............((((.....(((((..(((((((..(((((((((...........)))))))))...)))))))..).))))...))))(((.....))). (-43.50 = -43.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:24 2006