Locus 5509

Sequence ID X_DroMel_CAF1
Location 14,274,597 – 14,274,749
Length 152
Max. P 0.915867
window8939 window8940

overview

Window 9

Location 14,274,597 – 14,274,709
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.21
Mean single sequence MFE -34.24
Consensus MFE -21.24
Energy contribution -22.24
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.01
Structure conservation index 0.62
SVM decision value 0.15
SVM RNA-class probability 0.606185
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14274597 112 - 22224390
UUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGUUUUCUGUGCCAUCGGAAACGGAUGAGCUGGAGAAUCCUGGCGAGAAUUGGG-GGAAUGGAUCCAU-------
.....(..(((((((..........(((....)))......(((((((((((((.(((((((....).)))).))))))))).)))))))))))))..)-(((.....)))..------- ( -36.30)
>DroSec_CAF1 15254 92 - 1
UUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU-UUCUGUGCCAUCGGAAACGGAUGAGAUGGAGA--------------------GAAUGAAGCUAU-------
..((((...(((((((.........(((....)))(((((.(((..((-(((((......))))))).)))..))))))))--------------------))))...)))).------- ( -27.50)
>DroSim_CAF1 18738 112 - 1
UUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU-UUCUGUGCCAUCGGAAACGGAUGAGAUGGAGAAUCCUGGCGAGAAUUGGGGGGGAUGAAGCUAU-------
..((((...(((..((..((((...(((....)))......(((((((-((((((..(((((....).))))..)))))))..)))))).....))))))..)))...)))).------- ( -37.20)
>DroEre_CAF1 17684 110 - 1
UUUUGCACAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU-UUCUGUGCCAUCGGAAACGGAUGAGAUGGAGAAUCCGUGGGGGGAUCGGG-UUAAUGCAGCUU--------
..(((((......(((((((....(((((((....(((((.(((..((-(((((......))))))).)))..)))))....)))))))..)).)))))-....)))))...-------- ( -35.00)
>DroYak_CAF1 18466 118 - 1
UUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU-UUCUGUGCCAUCGGAAACGGAUGAGAUGGAGAAUCCUGCGGAGAAUUGGG-GGAAUGCAGCUAUGCAGCUA
..((((..(((((((((........(((....)))........(((((-((((((..(((((....).))))..)))))))..)))))))))))))...-....((((....)))))))) ( -35.20)
>consensus
UUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU_UUCUGUGCCAUCGGAAACGGAUGAGAUGGAGAAUCCUGGCGAGAAUUGGG_GGAAUGAAGCUAU_______
..((((.......((((((......(((....)))......))))))..((((((..(((((....).))))..))))))............................))))........ (-21.24 = -22.24 +   1.00)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,274,629 – 14,274,749
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 97.65
Mean single sequence MFE -36.75
Consensus MFE -33.92
Energy contribution -34.32
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.52
Structure conservation index 0.92
SVM decision value 1.10
SVM RNA-class probability 0.915867
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14274629 120 - 22224390
AUUUGCACUAUCUUGCCGGGCGAAAGCAGGGCUCAAUUUAUUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGUUUUCUGUGCCAUCGGAAACGGAUGAGCUGGAG
.(((((........(((..((....))..)))............)))))....((((((......(((....)))......))))))...((((.(((((((....).)))).)))))). ( -34.85)
>DroSec_CAF1 15267 119 - 1
AUUUUCACUAUCUUGCAGGGCGAGAGCAGGGCUCAAUUUAUUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU-UUCUGUGCCAUCGGAAACGGAUGAGAUGGAG
.......(((((((....(((..((((...))))..........(((.((...((((((......(((....)))......)))))).-)).)))))).(((....)))..))))))).. ( -34.50)
>DroSim_CAF1 18771 119 - 1
AUUUGCACUAUCUUGCCGGGCGAGAGCAGGGCUCAAUUUAUUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU-UUCUGUGCCAUCGGAAACGGAUGAGAUGGAG
.......((((((((((..((....))..)))............(((......((((((......(((....)))......)))))).-.....)))..(((....)))..))))))).. ( -37.00)
>DroEre_CAF1 17715 119 - 1
AUUUGCACUAUCUUGCCGGGCGAGAGCAGGGCUCAAUUUAUUUUGCACAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU-UUCUGUGCCAUCGGAAACGGAUGAGAUGGAG
.......((((((((((..((....))..)))............(((((....((((((......(((....)))......)))))).-...)))))..(((....)))..))))))).. ( -40.40)
>DroYak_CAF1 18505 119 - 1
AUUUGCACUAUCUUGCCGGGCGAGAGCAGGGCUCAAUUUAUUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU-UUCUGUGCCAUCGGAAACGGAUGAGAUGGAG
.......((((((((((..((....))..)))............(((......((((((......(((....)))......)))))).-.....)))..(((....)))..))))))).. ( -37.00)
>consensus
AUUUGCACUAUCUUGCCGGGCGAGAGCAGGGCUCAAUUUAUUUAGCAAAAUUUUCUGGCCAACAUCACGGAAGUGUCAUUAGUCAGGU_UUCUGUGCCAUCGGAAACGGAUGAGAUGGAG
.......((((((((((..((....))..)))............(((......((((((......(((....)))......)))))).......)))..(((....)))..))))))).. (-33.92 = -34.32 +   0.40)

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 11:49:41 2006