Locus 6557

Sequence ID 2R_DroMel_CAF1
Location 20,510,626 – 20,510,718
Length 92
Max. P 0.671253
window10437 window10438

overview

Window 7

Location 20,510,626 – 20,510,718
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 90.65
Mean single sequence MFE -24.82
Consensus MFE -20.12
Energy contribution -19.68
Covariance contribution -0.44
Combinations/Pair 1.16
Mean z-score -1.48
Structure conservation index 0.81
SVM decision value 0.29
SVM RNA-class probability 0.671253
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20510626 92 + 20766785
AGUGUGGGCCAGCCCACACAAAUCGAAAUGGAAAGUACCGCUGGCAAUUAUUGUAGUAGAGAAAAUGCCCUCAACUUUUUGCACAGGUGAGU
.(((((((....)))))))................((((....((((.......(((.(((........))).)))..))))...))))... ( -25.50)
>DroSec_CAF1 12097 92 + 1
AGUGUGGGCCAGCCCACACAGAUCGAAAUGGAAAGUACCGCUGGCAAAAAUUGUAGUAGAGAAAAUGCCCUCAACUCUUUGCAUAGGUAAGG
.(((((((....)))))))................((((....(((((....(.(((.(((........))).)))))))))...))))... ( -26.10)
>DroSim_CAF1 12091 92 + 1
AGUGUGGGCCAGCCCACACAGAUCGAAAUGGAAAGUACCGCUGGCAAAAAUUGUAGUAGAGAAAAUGCCCUCAACUCUUUGCACAGGUGAGG
.(((((((....)))))))................((((....(((((....(.(((.(((........))).)))))))))...))))... ( -25.80)
>DroEre_CAF1 12057 92 + 1
AGUGUGGGCCAGCCUACACAGAUCGAAAUGGAAAGUACUGCUGGCAGAAAUCAUAGUAGAGAAAAUGCCUUCAACACUUUGCACGGCUGAGG
.(((((((....)))))))((.(((...((.(((((..((..((((....((......)).....))))..))..))))).))))))).... ( -26.70)
>DroYak_CAF1 12049 92 + 1
AGUGUGGGGCAGCCUACAGAGAUCGAAAUGGAAAGUACCGCAGGCAAAAAUCAUAGUAGAGAAAAUGCCUUCAACACUUUGCACAGGUGAGG
..((((((....))))))....(((...((.(((((...(.(((((....((......)).....))))).)...))))).))....))).. ( -20.00)
>consensus
AGUGUGGGCCAGCCCACACAGAUCGAAAUGGAAAGUACCGCUGGCAAAAAUUGUAGUAGAGAAAAUGCCCUCAACUCUUUGCACAGGUGAGG
.(((((((....))))))).........((.((((.......((((....((......)).....)))).......)))).))......... (-20.12 = -19.68 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 8

Location 20,510,626 – 20,510,718
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 90.65
Mean single sequence MFE -23.50
Consensus MFE -17.87
Energy contribution -18.35
Covariance contribution 0.48
Combinations/Pair 1.10
Mean z-score -1.54
Structure conservation index 0.76
SVM decision value 0.02
SVM RNA-class probability 0.545644
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20510626 92 - 20766785
ACUCACCUGUGCAAAAAGUUGAGGGCAUUUUCUCUACUACAAUAAUUGCCAGCGGUACUUUCCAUUUCGAUUUGUGUGGGCUGGCCCACACU
.((((.((........)).))))((((...................))))...((......))..........(((((((....))))))). ( -24.21)
>DroSec_CAF1 12097 92 - 1
CCUUACCUAUGCAAAGAGUUGAGGGCAUUUUCUCUACUACAAUUUUUGCCAGCGGUACUUUCCAUUUCGAUCUGUGUGGGCUGGCCCACACU
...((((...(((((((((.(((((....))))).))).....))))))....))))................(((((((....))))))). ( -24.70)
>DroSim_CAF1 12091 92 - 1
CCUCACCUGUGCAAAGAGUUGAGGGCAUUUUCUCUACUACAAUUUUUGCCAGCGGUACUUUCCAUUUCGAUCUGUGUGGGCUGGCCCACACU
......(((.(((((((((.(((((....))))).))).....))))))))).((......))..........(((((((....))))))). ( -26.20)
>DroEre_CAF1 12057 92 - 1
CCUCAGCCGUGCAAAGUGUUGAAGGCAUUUUCUCUACUAUGAUUUCUGCCAGCAGUACUUUCCAUUUCGAUCUGUGUAGGCUGGCCCACACU
..((((((.((((((((((((..((((...((........))....))))..))))))))((......))....))))))))))........ ( -21.80)
>DroYak_CAF1 12049 92 - 1
CCUCACCUGUGCAAAGUGUUGAAGGCAUUUUCUCUACUAUGAUUUUUGCCUGCGGUACUUUCCAUUUCGAUCUCUGUAGGCUGCCCCACACU
..............(((((....((((.....((......)).....((((((((.....((......))...))))))))))))..))))) ( -20.60)
>consensus
CCUCACCUGUGCAAAGAGUUGAGGGCAUUUUCUCUACUACAAUUUUUGCCAGCGGUACUUUCCAUUUCGAUCUGUGUGGGCUGGCCCACACU
........(((.((((..(((..((((...................))))..)))..)))).)))........(((((((....))))))). (-17.87 = -18.35 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:44 2006