Locus 6496

Sequence ID 3L_DroMel_CAF1
Location 17,260,163 – 17,260,282
Length 119
Max. P 0.614166
window10484 window10485

overview

Window 4

Location 17,260,163 – 17,260,282
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 91.18
Mean single sequence MFE -39.64
Consensus MFE -31.94
Energy contribution -31.82
Covariance contribution -0.12
Combinations/Pair 1.20
Mean z-score -1.42
Structure conservation index 0.81
SVM decision value 0.13
SVM RNA-class probability 0.599495
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17260163 119 + 23771897
AUAAAUUUAAGGGAAAAAAUGGCGA-AUGGCCGCAGGUCGGGUUGGCAUAAAAAAUGGCCCCAAGCCCACCGAUUUUCGAUACCCUCAACCCGCCGGCUCACUUGAGCGAUGGCCGGCGG
.........((((.......(((..-...)))...(((.((((((((..........)))...))))))))...........))))....((((((((.(((......).)))))))))) ( -41.10)
>DroSec_CAF1 143767 118 + 1
AUAAAUUUAAGGGAAAAAAUGGCGA-AUGGCCGCAGGUCGGGGUGGCAUAAAAAAUGGCCCAAAGCAC-CCGAUUUUCGAUCCCCUCAACCCGCUGGCUUACUUGAGCGAUGGCCGGCGG
..........((((......(((..-...)))(.(((((((((((((..........)))....)).)-))))))).)..))))......(((((((((............))))))))) ( -40.50)
>DroSim_CAF1 138651 118 + 1
AUAAAUUUAAGGGAAAAAAUGGCGA-AUGGCCGCAGGUCGGGAUGGCAUAAAAAAUGGCCCCAAGCCC-CCGAUUCUCGAUCCCCUCAACCCGCUGGCUCACUUGAGCGAUGGCCGGCGG
..........((((......(((..-...)))(..(((((((..(((.................))))-))))))..)..))))......((((((((.(((......).)))))))))) ( -38.13)
>DroEre_CAF1 146848 116 + 1
AUAAAUUCAAGGGAAAAAACGGCGAAAUGGCCGCAGGUCGGGAUGGCAUAAAAAAUGGCCUCAA-C---CCGAUUUUCGAUCCCCUCGUCCCGCUGGCUCACUUGAGCGAUGGCCGGCGG
..........((((.....((((......)))).((((((((..(((..........)))....-)---)))))))....))))......((((((((.(((......).)))))))))) ( -40.90)
>DroYak_CAF1 151058 118 + 1
AUAAAUUCAAGGGAAAAAAUGGCGAAAUGGCCGCAGGUCGGAAUGAAAUAAAAAACGGCCUGAA-CUC-CCGAUUUUCGAUCCCCUCAUCCCGCUGGCGCACUUGAGCGAUGGCCGGCGG
..........((((......(((......))).(((((((...............)))))))..-.))-))...................((((((((.(((......).)))))))))) ( -37.56)
>consensus
AUAAAUUUAAGGGAAAAAAUGGCGA_AUGGCCGCAGGUCGGGAUGGCAUAAAAAAUGGCCCCAAGCCC_CCGAUUUUCGAUCCCCUCAACCCGCUGGCUCACUUGAGCGAUGGCCGGCGG
.........((((......((((......))))..((((((((.(((..........)))..............))))))))))))....((((((((.(((......).)))))))))) (-31.94 = -31.82 +  -0.12)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,260,163 – 17,260,282
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.18
Mean single sequence MFE -42.29
Consensus MFE -31.44
Energy contribution -31.52
Covariance contribution 0.08
Combinations/Pair 1.13
Mean z-score -1.77
Structure conservation index 0.74
SVM decision value 0.16
SVM RNA-class probability 0.614166
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17260163 119 - 23771897
CCGCCGGCCAUCGCUCAAGUGAGCCGGCGGGUUGAGGGUAUCGAAAAUCGGUGGGCUUGGGGCCAUUUUUUAUGCCAACCCGACCUGCGGCCAU-UCGCCAUUUUUUCCCUUAAAUUUAU
((((((((..((((....)))))))))))).(((((((....((((((..(..((.(((((..(((.....)))....)))))))..)(((...-..))))))))).)))))))...... ( -49.00)
>DroSec_CAF1 143767 118 - 1
CCGCCGGCCAUCGCUCAAGUAAGCCAGCGGGUUGAGGGGAUCGAAAAUCGG-GUGCUUUGGGCCAUUUUUUAUGCCACCCCGACCUGCGGCCAU-UCGCCAUUUUUUCCCUUAAAUUUAU
((((.(((...(......)...))).)))).(((((((((.......((((-(.(.....(((.((.....))))).)))))).....(((...-..))).....)))))))))...... ( -36.70)
>DroSim_CAF1 138651 118 - 1
CCGCCGGCCAUCGCUCAAGUGAGCCAGCGGGUUGAGGGGAUCGAGAAUCGG-GGGCUUGGGGCCAUUUUUUAUGCCAUCCCGACCUGCGGCCAU-UCGCCAUUUUUUCCCUUAAAUUUAU
((((.(((..((((....))))))).)))).(((((((((.........(.-(((.((((((.(((.....)))...))))))))).)(((...-..))).....)))))))))...... ( -43.30)
>DroEre_CAF1 146848 116 - 1
CCGCCGGCCAUCGCUCAAGUGAGCCAGCGGGACGAGGGGAUCGAAAAUCGG---G-UUGAGGCCAUUUUUUAUGCCAUCCCGACCUGCGGCCAUUUCGCCGUUUUUUCCCUUGAAUUUAU
((((.(((..((((....))))))).))))..((((((((.......((((---(-....(((.((.....)))))..)))))...(((((......)))))...))))))))....... ( -44.90)
>DroYak_CAF1 151058 118 - 1
CCGCCGGCCAUCGCUCAAGUGCGCCAGCGGGAUGAGGGGAUCGAAAAUCGG-GAG-UUCAGGCCGUUUUUUAUUUCAUUCCGACCUGCGGCCAUUUCGCCAUUUUUUCCCUUGAAUUUAU
((((.((((((.......))).))).))))..(.((((((..((((((.((-(((-....((((((....................))))))..))).)))))))))))))).)...... ( -37.55)
>consensus
CCGCCGGCCAUCGCUCAAGUGAGCCAGCGGGUUGAGGGGAUCGAAAAUCGG_GGGCUUGGGGCCAUUUUUUAUGCCAUCCCGACCUGCGGCCAU_UCGCCAUUUUUUCCCUUAAAUUUAU
((((.(((..((((....))))))).))))..((((((((.......((((.........(((.((.....)))))...)))).....(((......))).....))))))))....... (-31.44 = -31.52 +   0.08)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:15 2006