Locus 6044

Sequence ID 2R_DroMel_CAF1
Location 19,018,775 – 19,018,868
Length 93
Max. P 0.627607
window9688 window9689

overview

Window 8

Location 19,018,775 – 19,018,868
Length 93
Sequences 5
Columns 105
Reading direction forward
Mean pairwise identity 58.54
Mean single sequence MFE -23.47
Consensus MFE -11.94
Energy contribution -12.86
Covariance contribution 0.92
Combinations/Pair 1.50
Mean z-score -1.22
Structure conservation index 0.51
SVM decision value 0.19
SVM RNA-class probability 0.627607
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19018775 93 + 20766785
GUACUGAAAACUUGUUGAUGUCCUACCGGGCACGGCGGGUGGUAAUUGCACCACCCACUGCCAC--------A-CAACAUUCCGCACCCAAC---AAACAGGACA
((.(((.....((((((.(((((....))))).((((((((((......)))))))...)))..--------.-..............))))---)).))).)). ( -29.60)
>DroGri_CAF1 140895 92 + 1
UUGAAUAUCAGUAGAGUUUUGUUAAAGUUAAGACAGUGGAAAAUUUAAAUCGAGUUUAUACCAU--------A-AUAUCAUAUUCAGGGCUA---AUUG-AAAGA
((((((((.......((((((.......)))))).((((.((((((.....))))))...))))--------.-.....)))))))).....---....-..... ( -11.90)
>DroSec_CAF1 116694 92 + 1
GUCCUGAAAACUUGUUGAUGUCCUGCCGGGCGCGGCGGGUGGUAAUUGCACCACCCACUGCCAC--------A-CAACCUUCCGCACCCCAC---AAAU-GGACA
((((........(((.((.((((....))))((((.(((((((......))))))).))))...--------.-......)).)))......---....-)))). ( -31.57)
>DroEre_CAF1 120123 92 + 1
GUCCUGAAAACUUGUUGAUGUCCUGCCGGGCACAGCGGGUGUUGAUUGCACCACCCACUGCCAC--------U-CCCACUCCCGAGCCCAAC---AAAG-GGACA
(((((......((((((.(((((....)))))(((.(((((.((....)).))))).)))...(--------(-(........)))..))))---)).)-)))). ( -30.60)
>DroYak_CAF1 121178 104 + 1
GUUCUGAAAACUUGUUGAUGUCCUGCCGGGCACCACGGCUGUUAAUUGCACCACCCACUCCCACCUUCCACCUCCCAACUCCCAAACCCACCACGAAAU-GGACA
.............((((.(((((....)))))....((.(((.....))))).......................))))...........(((.....)-))... ( -13.70)
>consensus
GUCCUGAAAACUUGUUGAUGUCCUGCCGGGCACCGCGGGUGGUAAUUGCACCACCCACUGCCAC________A_CAAACUUCCGCACCCAAC___AAAG_GGACA
((((.........((((.(((((....)))))))))(((((..........)))))............................................)))). (-11.94 = -12.86 +   0.92)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,018,775 – 19,018,868
Length 93
Sequences 5
Columns 105
Reading direction reverse
Mean pairwise identity 58.54
Mean single sequence MFE -29.54
Consensus MFE -16.15
Energy contribution -17.83
Covariance contribution 1.68
Combinations/Pair 1.60
Mean z-score -1.10
Structure conservation index 0.55
SVM decision value 0.05
SVM RNA-class probability 0.556720
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19018775 93 - 20766785
UGUCCUGUUU---GUUGGGUGCGGAAUGUUG-U--------GUGGCAGUGGGUGGUGCAAUUACCACCCGCCGUGCCCGGUAGGACAUCAACAAGUUUUCAGUAC
(((((((...---.(((((..((...((((.-.--------..))))((((((((((....))))))))))))..)))))))))))).................. ( -39.10)
>DroGri_CAF1 140895 92 - 1
UCUUU-CAAU---UAGCCCUGAAUAUGAUAU-U--------AUGGUAUAAACUCGAUUUAAAUUUUCCACUGUCUUAACUUUAACAAAACUCUACUGAUAUUCAA
.....-....---......(((((((((((.-.--------.(((.....................))).))))...............(......)))))))). (  -5.00)
>DroSec_CAF1 116694 92 - 1
UGUCC-AUUU---GUGGGGUGCGGAAGGUUG-U--------GUGGCAGUGGGUGGUGCAAUUACCACCCGCCGCGCCCGGCAGGACAUCAACAAGUUUUCAGGAC
(((((-...(---((.(((((((....(((.-.--------..))).((((((((((....))))))))))))))))).)))))))).................. ( -42.00)
>DroEre_CAF1 120123 92 - 1
UGUCC-CUUU---GUUGGGCUCGGGAGUGGG-A--------GUGGCAGUGGGUGGUGCAAUCAACACCCGCUGUGCCCGGCAGGACAUCAACAAGUUUUCAGGAC
(((((-...(---(((((((.(....)....-.--------...((((((((((..........))))))))))))))))))))))).................. ( -36.30)
>DroYak_CAF1 121178 104 - 1
UGUCC-AUUUCGUGGUGGGUUUGGGAGUUGGGAGGUGGAAGGUGGGAGUGGGUGGUGCAAUUAACAGCCGUGGUGCCCGGCAGGACAUCAACAAGUUUUCAGAAC
..(((-(((....))))))((((..(((((...((((...(.((((.((((.((..........)).))))....)))).)....))))..))).))..)))).. ( -25.30)
>consensus
UGUCC_AUUU___GUUGGGUGCGGAAGGUGG_U________GUGGCAGUGGGUGGUGCAAUUAACACCCGCCGUGCCCGGCAGGACAUCAACAAGUUUUCAGGAC
(((((........(((((((((((........................(((((((((....)))))))))))))))))))).))))).................. (-16.15 = -17.83 +   1.68)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:01:10 2006