Locus 217

Sequence ID 3L_DroMel_CAF1
Location 609,277 – 609,367
Length 90
Max. P 0.999796
window319 window320

overview

Window 9

Location 609,277 – 609,367
Length 90
Sequences 4
Columns 105
Reading direction forward
Mean pairwise identity 77.30
Mean single sequence MFE -24.88
Consensus MFE -14.76
Energy contribution -15.32
Covariance contribution 0.56
Combinations/Pair 1.06
Mean z-score -3.73
Structure conservation index 0.59
SVM decision value 4.10
SVM RNA-class probability 0.999796
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 609277 90 + 23771897
GGCGCCAUUUUGUUGGCGUCUAUCAUAUCAUCACCAUGUA--------UAUAU-U------AUUUGGUGUAUAUAUGUAUACAAUGCAAACGCAUAUUUACACAU
(((((((......)))))))((((((((...(((((.(((--------.....-)------)).)))))...))))).)))..((((....)))).......... ( -26.00)
>DroSec_CAF1 20613 77 + 1
GGCGCCAUUUUGUUGGCGUC-AUCAUAU---CCCCAUG------------UAUAU------AUUUGGUGUAUA------UACAAUGCAGACGCAUAUUUACACAU
(((((((......)))))))-.......---.....((------------(((((------((.....)))))------))))((((....)))).......... ( -23.20)
>DroSim_CAF1 18988 88 + 1
GGCGCCAUUUUGUUGGCGUCUAUCAUAU---CACCAUGUA--------UGUAUAU------AUUUGGUGUAUAUACAUAUACAAUGCAGACGCAUAUUUACACAU
(((((((......)))))))........---.....((((--------(((((((------((.....)))))))))))))..((((....)))).......... ( -27.20)
>DroYak_CAF1 23392 98 + 1
GGCGCCAUUUUGUUGGCAUCUAUCAUAU---CACUAUAUAUACUCGUAUGUGCAUAUAUGGAUAUGGUAUA----UAUAUACAAUGCAGACGCAUAUUCACACAU
...((((......))))...((((((((---(..(((((.(((......))).)))))..)))))))))..----........((((....)))).......... ( -23.10)
>consensus
GGCGCCAUUUUGUUGGCGUCUAUCAUAU___CACCAUGUA________UGUAUAU______AUUUGGUGUAUA__UAUAUACAAUGCAGACGCAUAUUUACACAU
(((((((......)))))))..............................................(((((......))))).((((....)))).......... (-14.76 = -15.32 +   0.56) 

alignment

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secondary structure

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dotplot

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Window 0

Location 609,277 – 609,367
Length 90
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 77.30
Mean single sequence MFE -22.48
Consensus MFE -12.26
Energy contribution -12.32
Covariance contribution 0.06
Combinations/Pair 1.24
Mean z-score -2.86
Structure conservation index 0.55
SVM decision value 2.28
SVM RNA-class probability 0.991704
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 609277 90 - 23771897
AUGUGUAAAUAUGCGUUUGCAUUGUAUACAUAUAUACACCAAAU------A-AUAUA--------UACAUGGUGAUGAUAUGAUAGACGCCAACAAAAUGGCGCC
.((((((...((((....))))..))))))(((((.(((((...------.-.....--------....)))))...))))).....(((((......))))).. ( -21.62)
>DroSec_CAF1 20613 77 - 1
AUGUGUAAAUAUGCGUCUGCAUUGUA------UAUACACCAAAU------AUAUA------------CAUGGGG---AUAUGAU-GACGCCAACAAAAUGGCGCC
............((((((.(((.(((------((((.......)------)))))------------)))).))---)).....-...((((......)))))). ( -18.70)
>DroSim_CAF1 18988 88 - 1
AUGUGUAAAUAUGCGUCUGCAUUGUAUAUGUAUAUACACCAAAU------AUAUACA--------UACAUGGUG---AUAUGAUAGACGCCAACAAAAUGGCGCC
............((((((((((..(.((((((((((.......)------)))))))--------)).)..)))---......)))))((((......)))))). ( -23.40)
>DroYak_CAF1 23392 98 - 1
AUGUGUGAAUAUGCGUCUGCAUUGUAUAUA----UAUACCAUAUCCAUAUAUGCACAUACGAGUAUAUAUAGUG---AUAUGAUAGAUGCCAACAAAAUGGCGCC
..(((((.(((((((.......))))))).----)))))(((((((((((((((........)))))))).).)---)))))......((((......))))... ( -26.20)
>consensus
AUGUGUAAAUAUGCGUCUGCAUUGUAUAUA__UAUACACCAAAU______AUAUACA________UACAUGGUG___AUAUGAUAGACGCCAACAAAAUGGCGCC
..(((((.(((((((.......))))))).....)))))............................((((.......)))).....(((((......))))).. (-12.26 = -12.32 +   0.06) 

alignment

Postscript

secondary structure

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dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:34 2006