Locus 7185

Sequence ID X_DroMel_CAF1
Location 18,000,622 – 18,000,741
Length 119
Max. P 0.837869
window11738 window11739

overview

Window 8

Location 18,000,622 – 18,000,741
Length 119
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 84.60
Mean single sequence MFE -28.50
Consensus MFE -22.73
Energy contribution -23.10
Covariance contribution 0.37
Combinations/Pair 1.03
Mean z-score -1.87
Structure conservation index 0.80
SVM decision value 0.74
SVM RNA-class probability 0.837869
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18000622 119 + 22224390
GGUCGAAAGACAAUGAAAGAUAAUUCAGGACUCGAACCGAAUGAGUUCAGCAUUUGCAUAUGCGAGAAGUGUGGAGUGUGGGGCACAUAGAAAUGGAUAAUGA-AGAGGUCAUUCUGGGA
.(((....)))..((((......)))).........((((((((.(((.((((((((....))))...))))...(((.....))).................-.))).)))))).)).. ( -27.50)
>DroSec_CAF1 12550 116 + 1
GGUCGAAAGACAAUGAAAGAUAAUUCAGGACUCGAACCGAAUGAGUUCACCAUUUGCAUAUGCGAGGAGUGUGGAG---GGGUCACAUAGAAAUGGAUAAUGA-AGAGGUCAUUCCGGGA
.(((....)))...(((.(((..(((((((((((.......))))))).((((((((....)).....((((((..---...))))))..))))))....)))-)...))).)))..... ( -31.00)
>DroEre_CAF1 13369 116 + 1
GGUCGAAAGACAAUGAAAGAUAAUUCAGAACUCGAGCCGAAUGAGUUCAACAUUUGCAUAUGCGAGGAGUGUGGAG---GGGGCACAUAGAAAUGGAUAAUGA-AGAGGUCAUUCCCGGA
.(((....)))...(((.(((..(((((((((((.......)))))))..(((((((....)).....(((((...---....)))))..))))).....)))-)...))).)))..... ( -27.70)
>DroYak_CAF1 158 96 + 1
GGUCGAAAGACAAUGAAAGAUAAUUCAGGACUCGCACUGAAUGAGUUCAGCAUUUGCAUAUGCGAGG------------------------AAUGGAUAAUGGCGGAGGUCAUUCCGGGA
.(((....)))...........(((((...((((((.((((....))))((....))...)))))).------------------------..))))).....(((((....)))))... ( -27.80)
>consensus
GGUCGAAAGACAAUGAAAGAUAAUUCAGGACUCGAACCGAAUGAGUUCAGCAUUUGCAUAUGCGAGGAGUGUGGAG___GGGGCACAUAGAAAUGGAUAAUGA_AGAGGUCAUUCCGGGA
.(((....)))..((((......))))...((((....((((((.(((....(((((....)))))..(((((..........))))).................))).)))))))))). (-22.73 = -23.10 +   0.37)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,000,622 – 18,000,741
Length 119
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 84.60
Mean single sequence MFE -21.13
Consensus MFE -13.38
Energy contribution -13.12
Covariance contribution -0.25
Combinations/Pair 1.14
Mean z-score -1.98
Structure conservation index 0.63
SVM decision value 0.31
SVM RNA-class probability 0.684819
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18000622 119 - 22224390
UCCCAGAAUGACCUCU-UCAUUAUCCAUUUCUAUGUGCCCCACACUCCACACUUCUCGCAUAUGCAAAUGCUGAACUCAUUCGGUUCGAGUCCUGAAUUAUCUUUCAUUGUCUUUCGACC
.....((((((....(-(((.....(((((.(((((((...................))))))).))))).)))).))))))(((.((((...((((......))))......))))))) ( -20.11)
>DroSec_CAF1 12550 116 - 1
UCCCGGAAUGACCUCU-UCAUUAUCCAUUUCUAUGUGACCC---CUCCACACUCCUCGCAUAUGCAAAUGGUGAACUCAUUCGGUUCGAGUCCUGAAUUAUCUUUCAUUGUCUUUCGACC
...(((((.((((((.-.......((((((((((((((...---...........))))))).).)))))).(((((.....))))))))...((((......))))..))))))))... ( -24.04)
>DroEre_CAF1 13369 116 - 1
UCCGGGAAUGACCUCU-UCAUUAUCCAUUUCUAUGUGCCCC---CUCCACACUCCUCGCAUAUGCAAAUGUUGAACUCAUUCGGCUCGAGUUCUGAAUUAUCUUUCAUUGUCUUUCGACC
.....((((((....(-(((.....(((((.(((((((...---.............))))))).))))).)))).))))))((.(((((...((((......))))......))))))) ( -20.79)
>DroYak_CAF1 158 96 - 1
UCCCGGAAUGACCUCCGCCAUUAUCCAUU------------------------CCUCGCAUAUGCAAAUGCUGAACUCAUUCAGUGCGAGUCCUGAAUUAUCUUUCAUUGUCUUUCGACC
...(((((.(((.................------------------------.(((((((..((....))((((....)))))))))))...((((......))))..))))))))... ( -19.60)
>consensus
UCCCGGAAUGACCUCU_UCAUUAUCCAUUUCUAUGUGCCCC___CUCCACACUCCUCGCAUAUGCAAAUGCUGAACUCAUUCGGUUCGAGUCCUGAAUUAUCUUUCAUUGUCUUUCGACC
.....(((.(((..........................................(((((....))....((((((....))))))..)))...((((......))))..))).))).... (-13.38 = -13.12 +  -0.25)

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 12:32:15 2006