Locus 4412

Sequence ID 3R_DroMel_CAF1
Location 11,647,512 – 11,647,632
Length 120
Max. P 0.997819
window7203 window7204

overview

Window 3

Location 11,647,512 – 11,647,632
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.50
Mean single sequence MFE -36.22
Consensus MFE -33.52
Energy contribution -33.76
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.95
Structure conservation index 0.93
SVM decision value 2.94
SVM RNA-class probability 0.997819
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11647512 120 + 27905053
ACAUGCGCAUCAUUAUUACCUCGGGUCCCAUAGCCAGUGAUGUGACUGUCAUUUAUGGACCAUUUUUGGCGCACACAGUGCGCAUCUUCAACACGAGAACUCAUCUGGAUGCAGCGAUAU
...((((((((........(((((((((.((((...(((((......)))))))))))))).......((((((...))))))..........))))..........))))).))).... ( -36.17)
>DroSec_CAF1 28356 120 + 1
ACAUGCGCAUCAUUAUCACCUCGGGUCCCAUAGCCAGUGAUGUGACUGUCAUUUAUGGACCCUUUUUGGCGCACACGGUGCGCAUCUUCAACACGAGAACUCACCUGGAUGCAGCGAUAU
...((((((((........(((((((((.((((...(((((......)))))))))))))))......((((((...))))))...........)))..........))))).))).... ( -37.07)
>DroSim_CAF1 30553 120 + 1
ACAUGCGCAUCAUUAUCACCUCGGGUCCCAUAGCCAGUGAUGUGACUGUCAUUUAUGGACCCUUUUUAGCGCACACGGUGCGCAUCUUCAACACGAGAACUCACCUGGAUGCAGCGAUAU
...((((((((........(((((((((.((((...(((((......)))))))))))))))......((((((...))))))...........)))..........))))).))).... ( -37.27)
>DroEre_CAF1 26256 120 + 1
ACAUGCGCAUCAUUAUCACCUCGGGUCCAAUAGCCAGUGAUGUGACUGUCAUUUAUGGACCCUUUUUGGCGCACACGGUGCGCAUCUUUAACACGAGAACUCACCUGGAUGCAGCGAUAU
...((((((((........((((((((((.(((...(((((......)))))))))))))))......((((((...))))))...........)))..........))))).))).... ( -37.07)
>DroYak_CAF1 28844 120 + 1
ACGUGCGCAUCAUUAUCACCUCGGGUCCAAUAGCUAGCGAUGUGACUGUCAUUUAUGGACCCUUUUUGGCGCACACAGUGCGCAUCUUUAAUACAAGAACUCACCUAGAUGCAGCCAUUU
..(.(((((((...........(((((((...(....)(((......))).....)))))))......((((((...)))))).((((......)))).........))))).))).... ( -33.50)
>consensus
ACAUGCGCAUCAUUAUCACCUCGGGUCCCAUAGCCAGUGAUGUGACUGUCAUUUAUGGACCCUUUUUGGCGCACACGGUGCGCAUCUUCAACACGAGAACUCACCUGGAUGCAGCGAUAU
....(((((((...........((((((.((((...(((((......)))))))))))))))......((((((...)))))).((((......)))).........))))).))..... (-33.52 = -33.76 +   0.24)

alignment

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secondary structure

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dotplot

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Window 4

Location 11,647,512 – 11,647,632
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.50
Mean single sequence MFE -38.14
Consensus MFE -35.42
Energy contribution -35.50
Covariance contribution 0.08
Combinations/Pair 1.07
Mean z-score -1.43
Structure conservation index 0.93
SVM decision value 1.31
SVM RNA-class probability 0.940045
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11647512 120 - 27905053
AUAUCGCUGCAUCCAGAUGAGUUCUCGUGUUGAAGAUGCGCACUGUGUGCGCCAAAAAUGGUCCAUAAAUGACAGUCACAUCACUGGCUAUGGGACCCGAGGUAAUAAUGAUGCGCAUGU
.....((.(((((...((....(((((..........((((((...)))))).......(((((....(((.((((......))))..))).))))))))))..))...))))))).... ( -35.20)
>DroSec_CAF1 28356 120 - 1
AUAUCGCUGCAUCCAGGUGAGUUCUCGUGUUGAAGAUGCGCACCGUGUGCGCCAAAAAGGGUCCAUAAAUGACAGUCACAUCACUGGCUAUGGGACCCGAGGUGAUAAUGAUGCGCAUGU
...(((((.......)))))...............(((((((.(((...((((.....((((((....(((.((((......))))..))).))))))..))))...))).))))))).. ( -39.30)
>DroSim_CAF1 30553 120 - 1
AUAUCGCUGCAUCCAGGUGAGUUCUCGUGUUGAAGAUGCGCACCGUGUGCGCUAAAAAGGGUCCAUAAAUGACAGUCACAUCACUGGCUAUGGGACCCGAGGUGAUAAUGAUGCGCAUGU
.....((.(((((...((.(.(((.............((((((...))))))......((((((....(((.((((......))))..))).))))))))).).))...))))))).... ( -38.90)
>DroEre_CAF1 26256 120 - 1
AUAUCGCUGCAUCCAGGUGAGUUCUCGUGUUAAAGAUGCGCACCGUGUGCGCCAAAAAGGGUCCAUAAAUGACAGUCACAUCACUGGCUAUUGGACCCGAGGUGAUAAUGAUGCGCAUGU
...(((((.......)))))...............(((((((.(((...((((.....(((((((.......((((......)))).....)))))))..))))...))).))))))).. ( -39.90)
>DroYak_CAF1 28844 120 - 1
AAAUGGCUGCAUCUAGGUGAGUUCUUGUAUUAAAGAUGCGCACUGUGUGCGCCAAAAAGGGUCCAUAAAUGACAGUCACAUCGCUAGCUAUUGGACCCGAGGUGAUAAUGAUGCGCACGU
..(((((.(((((...((.(.(((.............((((((...))))))......(((((((.....(..(((......)))..)...)))))))))).).))...))))))).))) ( -37.40)
>consensus
AUAUCGCUGCAUCCAGGUGAGUUCUCGUGUUGAAGAUGCGCACCGUGUGCGCCAAAAAGGGUCCAUAAAUGACAGUCACAUCACUGGCUAUGGGACCCGAGGUGAUAAUGAUGCGCAUGU
.....((.(((((...((.(.(((.............((((((...))))))......((((((........((((......))))......))))))))).).))...))))))).... (-35.42 = -35.50 +   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 11:28:28 2006