Locus 3022

Sequence ID 2L_DroMel_CAF1
Location 8,617,446 – 8,617,589
Length 143
Max. P 0.995487
window4808 window4809

overview

Window 8

Location 8,617,446 – 8,617,551
Length 105
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 96.36
Mean single sequence MFE -18.71
Consensus MFE -16.70
Energy contribution -17.30
Covariance contribution 0.60
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.89
SVM decision value 2.58
SVM RNA-class probability 0.995487
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8617446 105 - 22407834
AUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU-GAUGUUCCGGCAGCUGUUUACUUGGCUGCCUUUCAUUACUUGAUUUCAUUUUUUCUGUUGCCUCC----
...........((..........(((((.(((((((....-))))))).((((((((......)))))))).............)))))...........))....---- ( -21.30)
>DroSec_CAF1 45744 105 - 1
AUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU-GAUGUUCCUGCAGCUGUUUACUUGGCUGCCUUUCAUUAUUUGAUUUCAUUUUUUCUGUUGCCUCC----
...........((..........(((((.(((((((....-)))))))..(((((((......)))))))..............)))))...........))....---- ( -17.30)
>DroSim_CAF1 51430 105 - 1
AUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU-GAUGUUCCAGCAGCUGUUUACUUGGCUGCCUUUCAUUACUUGAUUUCAUUUUUUCUGUUGCCUCC----
...........((..........(((((.(((((((....-)))))))..(((((((......)))))))..............)))))...........))....---- ( -17.50)
>DroEre_CAF1 47395 105 - 1
AUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU-GAUGUUCCGGCAGCUGUUUACUUGGCUGCCUUUCAUUACUUGAUUUCAUUUUUUCUGCUGCCUCC----
...........((..((......(((((.(((((((....-))))))).((((((((......)))))))).............)))))........)).))....---- ( -21.84)
>DroYak_CAF1 48688 110 - 1
AUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUUCGAUGUUCCGGCAACUGUUUACUUGGCUGCCUUUCAUUACUUGAUUUCAUUUUUUCUGUUGCCUCCAUUC
....................(((((((((((...)))))))))))....((((((.(((.....)))......(((.....))).............))))))....... ( -15.60)
>consensus
AUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU_GAUGUUCCGGCAGCUGUUUACUUGGCUGCCUUUCAUUACUUGAUUUCAUUUUUUCUGUUGCCUCC____
...........((..........(((((.(((((((.....))))))).((((((((......)))))))).............)))))...........))........ (-16.70 = -17.30 +   0.60)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,617,476 – 8,617,589
Length 113
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 93.48
Mean single sequence MFE -26.80
Consensus MFE -20.48
Energy contribution -22.24
Covariance contribution 1.76
Combinations/Pair 1.03
Mean z-score -1.83
Structure conservation index 0.76
SVM decision value 0.27
SVM RNA-class probability 0.661073
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8617476 113 - 22407834
UUUGUGCGUACAGUUGAACAACUGGAA--AAAGUAUAUAAAUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU-GAUGUUCCGGCAGCUGUUUACUUGGCUGCCUUUCA
.....((((.(((((....)))))...--.((((((....))))))...))))..........(((((.(((((((....-))))))).((((((((......))))))))))))) ( -29.30)
>DroSec_CAF1 45774 115 - 1
UUUGUGCGUACAGUUGAACAACUGAAAAAAAAGUAUAUAAAUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU-GAUGUUCCUGCAGCUGUUUACUUGGCUGCCUUUCA
.....((((.(((((....)))))......((((((....))))))...))))..........(((((.(((((((....-)))))))..(((((((......))))))).))))) ( -25.10)
>DroSim_CAF1 51460 114 - 1
UUUGUGCGUACAGUUGAACAACUGAAA-AAAAGUAUAUAAAUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU-GAUGUUCCAGCAGCUGUUUACUUGGCUGCCUUUCA
.....((((.(((((....)))))...-..((((((....))))))...))))..........(((((.(((((((....-)))))))..(((((((......))))))).))))) ( -25.30)
>DroEre_CAF1 47425 112 - 1
UUUGUGCGCACGGUUGAACA-CUGGAGAAAAAGC--ACAAAUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU-GAUGUUCCGGCAGCUGUUUACUUGGCUGCCUUUCA
(((((((.(.((((.....)-)))..).....))--)))))......................(((((.(((((((....-))))))).((((((((......))))))))))))) ( -28.70)
>DroYak_CAF1 48722 114 - 1
UUUGUGCGUACGGUUGAACAACUGGUGAAAAAGU--AUAAAUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUUCGAUGUUCCGGCAACUGUUUACUUGGCUGCCUUUCA
.....((((.(((((....)))))((((((....--.......)))))))))).......(((((((((((...)))))))))))....((((.(((......))).))))..... ( -25.60)
>consensus
UUUGUGCGUACAGUUGAACAACUGGAAAAAAAGUAUAUAAAUAUUUCACACGCUUGUUUUUAUUGAAAAGAAUAUUUUUU_GAUGUUCCGGCAGCUGUUUACUUGGCUGCCUUUCA
.....((((.(((((....)))))......((((((....))))))...))))..........(((((.(((((((.....))))))).((((((((......))))))))))))) (-20.48 = -22.24 +   1.76)

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 10:42:24 2006