Locus 2980

Sequence ID 3L_DroMel_CAF1
Location 8,555,231 – 8,555,351
Length 120
Max. P 0.783108
window4659 window4660

overview

Window 9

Location 8,555,231 – 8,555,330
Length 99
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 84.28
Mean single sequence MFE -20.35
Consensus MFE -15.72
Energy contribution -16.05
Covariance contribution 0.33
Combinations/Pair 1.14
Mean z-score -2.38
Structure conservation index 0.77
SVM decision value 0.56
SVM RNA-class probability 0.783108
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8555231 99 + 23771897
CUAGACAUCAGUCAAUUAUGAAGUCAACUGCUAUUCUUAGCAGGCACC-GUAUGAUUAUUGUAUUGAAAUCAUAAAUCAAUAAGCU-CCUACCCUUCAAUU
...(((....))).....(((((....((((((....)))))).....-(((.((((((((...((....)).....))))))..)-).))).)))))... ( -19.50)
>DroSec_CAF1 6522 91 + 1
CUAGACAUCAGUCAACUAUGAAGUCAACUGCUAUUCUUAGCAGGCACC-GUAUGAUUAUUGUAUUGAAAUCAUAAAUCAAU---------ACCCUUCAAUU
...(((....))).....(((((....((((((....)))))).....-...........(((((((.........)))))---------)).)))))... ( -19.80)
>DroSim_CAF1 6975 99 + 1
CUAGACAUCAGUCAACUAUGAAGUCAACUGCUAUUCUUAGCAGGCAGC-GUAUGAUUAUUGUAUUGAAAUCAUAAAUCAAUAAGCU-CCUACCCUUCAAUU
...(((....))).....(((((......((((....))))(((.(((-.(((((((..........))))))).........)))-)))...)))))... ( -19.70)
>DroEre_CAF1 6842 99 + 1
CUAGACAUCAGUCAACUAUGAAGUCAGCUGCUAUUCUUAGCAGGCACC-GUAUGAAUACUAUAUUGGAAUCAUAAAUCAAUAAGCU-CCUGCCCUUCAAUU
...(((....))).....(((((.(((((((((....))))))((...-(((....)))..((((((.........)))))).)).-.)))..)))))... ( -19.10)
>DroYak_CAF1 6762 99 + 1
CUAGACAUCGGUCAACUAUGAAGUCAACUGCUAUUUUUAGCAGGCAGC-GUAUGAUUACUGUAUUGAAAUCAUAAAUCAAUAAGCU-CCAACCCUUCAAUU
...(((....))).....(((((....((((((....))))))(.(((-.(((((((.(......).))))))).........)))-.)....)))))... ( -21.50)
>DroPer_CAF1 8688 97 + 1
C----CAUCAUUGAGUGGUGAAGUCAUUUGCUAUUCCCAGCAGUCACAUUUAUGAUUAUAAUAUUACAAUCAUAAAUCUAUAGGCUGUCGAGACUUCAAUU
(----(((......))))(((((((....(((......)))((((..((((((((((.((....)).)))))))))).....)))).....)))))))... ( -22.50)
>consensus
CUAGACAUCAGUCAACUAUGAAGUCAACUGCUAUUCUUAGCAGGCACC_GUAUGAUUAUUGUAUUGAAAUCAUAAAUCAAUAAGCU_CCUACCCUUCAAUU
...(((....))).....(((((....((((((....)))))).......(((((((.(......).)))))))...................)))))... (-15.72 = -16.05 +   0.33)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,555,256 – 8,555,351
Length 95
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 81.39
Mean single sequence MFE -18.89
Consensus MFE -12.23
Energy contribution -12.57
Covariance contribution 0.34
Combinations/Pair 1.14
Mean z-score -1.47
Structure conservation index 0.65
SVM decision value -0.03
SVM RNA-class probability 0.519196
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8555256 95 + 23771897
AACUGCUAUUCUUAGCAGGCACC-GUAUGAUUAUUGUAUUGAAAUCAUAAAUCAAUAAGCU-CCUACCCUUCAAUUUGAUAUUGCAGCUA---------------CUUUGGU
..((((((....))))))..(((-((((((((..........)))))))........((((-.(......((.....))....).)))).---------------...)))) ( -16.90)
>DroSec_CAF1 6547 87 + 1
AACUGCUAUUCUUAGCAGGCACC-GUAUGAUUAUUGUAUUGAAAUCAUAAAUCAAU---------ACCCUUCAAUUUGAUAUUGCAGCUA---------------CUUUGGU
..((((((....))))))..(((-(..........(((((((.........)))))---------)).((.((((.....)))).))...---------------...)))) ( -16.40)
>DroSim_CAF1 7000 95 + 1
AACUGCUAUUCUUAGCAGGCAGC-GUAUGAUUAUUGUAUUGAAAUCAUAAAUCAAUAAGCU-CCUACCCUUCAAUUUGAUAUUGCAGCUA---------------CUUUGGU
..((((((....))))))((.((-((((((((..........))))))).(((((.(((..-......)))....)))))..))).))..---------------....... ( -16.80)
>DroEre_CAF1 6867 95 + 1
AGCUGCUAUUCUUAGCAGGCACC-GUAUGAAUACUAUAUUGGAAUCAUAAAUCAAUAAGCU-CCUGCCCUUCAAUUUGAUAUUGCAGCUA---------------CUUUGGU
((((((........(((((....-(((....)))..((((((.........))))))....-)))))...((.....))....)))))).---------------....... ( -17.20)
>DroYak_CAF1 6787 95 + 1
AACUGCUAUUUUUAGCAGGCAGC-GUAUGAUUACUGUAUUGAAAUCAUAAAUCAAUAAGCU-CCAACCCUUCAAUUUGAUAUUGCAGCUA---------------CUUUGGC
..((((((....))))))...((-.(((((((.(......).)))))))...(((..((((-.(((....((.....))..))).)))).---------------..))))) ( -19.70)
>DroPer_CAF1 8709 112 + 1
AUUUGCUAUUCCCAGCAGUCACAUUUAUGAUUAUAAUAUUACAAUCAUAAAUCUAUAGGCUGUCGAGACUUCAAUUUCAUACUGCAGCUAAUCGAAGUCUCAAAGCUUCUGA
....(((.....((((......((((((((((.((....)).))))))))))......))))..((((((((.(((.............))).))))))))..)))...... ( -26.32)
>consensus
AACUGCUAUUCUUAGCAGGCACC_GUAUGAUUAUUGUAUUGAAAUCAUAAAUCAAUAAGCU_CCUACCCUUCAAUUUGAUAUUGCAGCUA_______________CUUUGGU
..((((((....))))))(((....(((((((.(......).))))))).(((((....................)))))..)))........................... (-12.23 = -12.57 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:42 2006