Locus 74

Sequence ID X_DroMel_CAF1
Location 320,588 – 320,682
Length 94
Max. P 0.999913
window93 window94

overview

Window 3

Location 320,588 – 320,682
Length 94
Sequences 5
Columns 100
Reading direction forward
Mean pairwise identity 90.66
Mean single sequence MFE -21.09
Consensus MFE -16.46
Energy contribution -16.62
Covariance contribution 0.16
Combinations/Pair 1.05
Mean z-score -2.86
Structure conservation index 0.78
SVM decision value 2.20
SVM RNA-class probability 0.990102
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 320588 94 + 22224390
UUUGCACGAUAUUUACUCACCCUCACUU------UUACUUGGCGCUAUACUCUCCUGCCAAUUGUGCUCAGGACUUCAUUGUCCUGUGCUUACGUGUUCU
...(((((....................------....((((((...........))))))....((.((((((......)))))).))...)))))... ( -24.50)
>DroSec_CAF1 63566 94 + 1
UUUGCAGGAUAUUUUGUCACCCUCACUC------UUACUUGGCGCUAUACUCUCCUGCCAAUUGUACCCAGGACUUCAUUGUCCUGCGCUUACGUAUUCU
...(((((((((..(((((.........------.....)))))..)))...)))))).....(((.(((((((......)))))).)..)))....... ( -21.94)
>DroSim_CAF1 84217 94 + 1
UUUGCAGGAUAUUUUGUCACCCUCACUC------UUACUCGGCGCUAUACUCUCCUGCCAAUUGUACCCAGGACUUCAUUGUCCUGCGCUUACGUAUUCU
...(((((((((..((((..........------......))))..)))...)))))).....(((.(((((((......)))))).)..)))....... ( -20.99)
>DroEre_CAF1 64039 94 + 1
UUUGCAGGAUAUUUUCUCACCCUCACUC------UUACUUGGCGCUACACUCUCCUGCCAAUUGUCCCCAGGACUUCAUUGUCCUGUGCCUACGUGUUCU
...((((((((.................------....((((((...........))))))..((((...)))).....))))))))............. ( -19.20)
>DroYak_CAF1 84553 100 + 1
UUUGCAGGAUAUUUUCCCACCCUCACUCUUACUCUUACUUGGCGCUAUGCUCUCCUGCCAAUUGUCCCCAGGACCUCAUUGUCCUGUGCUUACGUGUUCU
...((((((((...........................((((((...........))))))..((((...)))).....))))))))............. ( -18.80)
>consensus
UUUGCAGGAUAUUUUCUCACCCUCACUC______UUACUUGGCGCUAUACUCUCCUGCCAAUUGUACCCAGGACUUCAUUGUCCUGUGCUUACGUGUUCU
.....(((((((..........................((((((...........)))))).......((((((......)))))).......))))))) (-16.46 = -16.62 +   0.16) 

alignment

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secondary structure

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dotplot

Postscript

Window 4

Location 320,588 – 320,682
Length 94
Sequences 5
Columns 100
Reading direction reverse
Mean pairwise identity 90.66
Mean single sequence MFE -26.54
Consensus MFE -23.92
Energy contribution -24.44
Covariance contribution 0.52
Combinations/Pair 1.05
Mean z-score -3.02
Structure conservation index 0.90
SVM decision value 4.52
SVM RNA-class probability 0.999913
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 320588 94 - 22224390
AGAACACGUAAGCACAGGACAAUGAAGUCCUGAGCACAAUUGGCAGGAGAGUAUAGCGCCAAGUAA------AAGUGAGGGUGAGUAAAUAUCGUGCAAA
...........((.((((((......)))))).)).......(((.((........((((...((.------...))..))))........)).)))... ( -24.29)
>DroSec_CAF1 63566 94 - 1
AGAAUACGUAAGCGCAGGACAAUGAAGUCCUGGGUACAAUUGGCAGGAGAGUAUAGCGCCAAGUAA------GAGUGAGGGUGACAAAAUAUCCUGCAAA
...........((.((((((......)))))).)).......((((((........((((...((.------...))..))))........))))))... ( -28.49)
>DroSim_CAF1 84217 94 - 1
AGAAUACGUAAGCGCAGGACAAUGAAGUCCUGGGUACAAUUGGCAGGAGAGUAUAGCGCCGAGUAA------GAGUGAGGGUGACAAAAUAUCCUGCAAA
...........((.((((((......)))))).)).......((((((........((((......------.......))))........))))))... ( -28.41)
>DroEre_CAF1 64039 94 - 1
AGAACACGUAGGCACAGGACAAUGAAGUCCUGGGGACAAUUGGCAGGAGAGUGUAGCGCCAAGUAA------GAGUGAGGGUGAGAAAAUAUCCUGCAAA
.......((.....((((((......))))))...)).....((((((.....(..((((...((.------...))..))))..).....))))))... ( -26.30)
>DroYak_CAF1 84553 100 - 1
AGAACACGUAAGCACAGGACAAUGAGGUCCUGGGGACAAUUGGCAGGAGAGCAUAGCGCCAAGUAAGAGUAAGAGUGAGGGUGGGAAAAUAUCCUGCAAA
....(((.((..(.((((((......)))))).......(((((.............)))))....)..))...)))...(..(((.....)))..)... ( -25.22)
>consensus
AGAACACGUAAGCACAGGACAAUGAAGUCCUGGGGACAAUUGGCAGGAGAGUAUAGCGCCAAGUAA______GAGUGAGGGUGAGAAAAUAUCCUGCAAA
.......((..((.((((((......)))))).)))).....((((((........((((...................))))........))))))... (-23.92 = -24.44 +   0.52) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:12 2006