Locus 4498

Sequence ID X_DroMel_CAF1
Location 11,884,422 – 11,884,521
Length 99
Max. P 0.999333
window7398 window7399

overview

Window 8

Location 11,884,422 – 11,884,521
Length 99
Sequences 5
Columns 104
Reading direction forward
Mean pairwise identity 96.44
Mean single sequence MFE -29.42
Consensus MFE -28.52
Energy contribution -28.56
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -2.07
Structure conservation index 0.97
SVM decision value 3.52
SVM RNA-class probability 0.999333
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11884422 99 + 22224390
CUGACGCUCGGGGAAUUUUUCCUCGUUUUGUCUUUUCCUUGGUCGCGUGCGCGCGCGAAAAUUAGGAAAAUAUUGUUUUGCUUGCUUUGCAGCGAUUUU-----
..((((..((((((.....))))))...))))(((((((...((((((....)))))).....))))))).......(((((.((...)))))))....----- ( -32.30)
>DroSec_CAF1 16320 99 + 1
CUGACGCUCGGGGAAUUUUUCUUCGUUUUGUCUUUUCCUUGGUCGCGUGCGCGCGCGAAAAUUAGGAAAAUAUUGUUUUGCUUGCUUUGCACCGAUUUC-----
..((((..((((((.....))))))...))))(((((((...((((((....)))))).....)))))))........(((.......)))........----- ( -26.80)
>DroSim_CAF1 20877 99 + 1
CUGACGCUCGGGGAAUUUUUCCUCGUUUUGUCUUUUCCUUGGUCGCGUGCGCGCGCGAAAAUUAGGAAAAUAUUGUUUUGCUUGCUUUGCACCGAUUUC-----
..((((..((((((.....))))))...))))(((((((...((((((....)))))).....)))))))........(((.......)))........----- ( -29.60)
>DroEre_CAF1 17847 99 + 1
CUGACGCUCGGGGAAUUUUUCCUCGUUUUGUCUUUUCCUUGGUCGCGUGCGCGCGCGAAAAUUAGGAAAAUAUUGUUUUGCUUGCUUUGCACCGAUUUC-----
..((((..((((((.....))))))...))))(((((((...((((((....)))))).....)))))))........(((.......)))........----- ( -29.60)
>DroYak_CAF1 20781 104 + 1
CUGACGCUCGGGGAAUUUUCCCUCGUUUUGUCUUUUCCUUGGUCGCGUGCGCGCGCGAAAAUUAGGAAAAUAUUGUUUUGCUUGCUUUGCACCGAUUUCUUUUC
..((((..((((((....)))).))...))))(((((((...((((((....)))))).....)))))))........(((.......)))............. ( -28.80)
>consensus
CUGACGCUCGGGGAAUUUUUCCUCGUUUUGUCUUUUCCUUGGUCGCGUGCGCGCGCGAAAAUUAGGAAAAUAUUGUUUUGCUUGCUUUGCACCGAUUUC_____
..((((..((((((.....))))))...))))(((((((...((((((....)))))).....)))))))........(((.......)))............. (-28.52 = -28.56 +   0.04)

alignment

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secondary structure

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dotplot

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Window 9

Location 11,884,422 – 11,884,521
Length 99
Sequences 5
Columns 104
Reading direction reverse
Mean pairwise identity 96.44
Mean single sequence MFE -22.72
Consensus MFE -20.26
Energy contribution -20.30
Covariance contribution 0.04
Combinations/Pair 1.05
Mean z-score -1.61
Structure conservation index 0.89
SVM decision value 1.27
SVM RNA-class probability 0.938881
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11884422 99 - 22224390
-----AAAAUCGCUGCAAAGCAAGCAAAACAAUAUUUUCCUAAUUUUCGCGCGCGCACGCGACCAAGGAAAAGACAAAACGAGGAAAAAUUCCCCGAGCGUCAG
-----......(((....)))..((.........(((((((.....(((((......)))))...))))))).......((.(((.....))).)).))..... ( -22.70)
>DroSec_CAF1 16320 99 - 1
-----GAAAUCGGUGCAAAGCAAGCAAAACAAUAUUUUCCUAAUUUUCGCGCGCGCACGCGACCAAGGAAAAGACAAAACGAAGAAAAAUUCCCCGAGCGUCAG
-----((..(((((((.......)))........(((((((.....(((((......)))))...))))))).....................))))...)).. ( -21.30)
>DroSim_CAF1 20877 99 - 1
-----GAAAUCGGUGCAAAGCAAGCAAAACAAUAUUUUCCUAAUUUUCGCGCGCGCACGCGACCAAGGAAAAGACAAAACGAGGAAAAAUUCCCCGAGCGUCAG
-----((..(((((((.......)))........(((((((.....(((((......)))))...)))))))..........(((.....)))))))...)).. ( -22.30)
>DroEre_CAF1 17847 99 - 1
-----GAAAUCGGUGCAAAGCAAGCAAAACAAUAUUUUCCUAAUUUUCGCGCGCGCACGCGACCAAGGAAAAGACAAAACGAGGAAAAAUUCCCCGAGCGUCAG
-----((..(((((((.......)))........(((((((.....(((((......)))))...)))))))..........(((.....)))))))...)).. ( -22.30)
>DroYak_CAF1 20781 104 - 1
GAAAAGAAAUCGGUGCAAAGCAAGCAAAACAAUAUUUUCCUAAUUUUCGCGCGCGCACGCGACCAAGGAAAAGACAAAACGAGGGAAAAUUCCCCGAGCGUCAG
...........(..((..................(((((((.....(((((......)))))...))))))).......((.((((....)))))).))..).. ( -25.00)
>consensus
_____GAAAUCGGUGCAAAGCAAGCAAAACAAUAUUUUCCUAAUUUUCGCGCGCGCACGCGACCAAGGAAAAGACAAAACGAGGAAAAAUUCCCCGAGCGUCAG
...........(..((..................(((((((.....(((((......)))))...))))))).......((.((((...)))).)).))..).. (-20.26 = -20.30 +   0.04)

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 11:26:38 2006