Locus 9218

Sequence ID 3R_DroMel_CAF1
Location 24,568,142 – 24,568,253
Length 111
Max. P 0.687838
window14744 window14745

overview

Window 4

Location 24,568,142 – 24,568,253
Length 111
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 90.27
Mean single sequence MFE -26.98
Consensus MFE -19.91
Energy contribution -20.20
Covariance contribution 0.29
Combinations/Pair 1.16
Mean z-score -1.61
Structure conservation index 0.74
SVM decision value -0.04
SVM RNA-class probability 0.514216
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24568142 111 + 27905053
AUUGGCACUGGGAAAUCAGUGGAAAAAGCCCGCGGGCCAUUUAUGAGUAUCAACAGAAAUUGGAACCAAUGUCCGACCAUAAUUACGUGUAGUUGAUACUCGCAAUGAAAA
.....((((((....))))))......(((....)))((((..(((((((((((.((.((((....)))).))....(((......)))..))))))))))).)))).... ( -31.10)
>DroSec_CAF1 66401 111 + 1
AUUGGCACUGGGAAAUCAGUGGAAAAAGCCCGCAGGCCAUUUAUUAGUAUCAGCAGAAAUUGGAACCAAUGUCCGACCAUAAUUACUUGUAGUUGAUACUCGCAAUGAAAA
..((((..((((...((....)).....))))...))))(((((((((((((((.((.((((....)))).))....((........))..)))))))))...)))))).. ( -25.30)
>DroSim_CAF1 68571 111 + 1
AUUGGCACUGGGAAAUCAGUGGAAAAAGCCCGCAGGCCAUUUAUUAGUAUCAGCAGAAAUUGGAACCAAUGUCCGACCAUAAUUACUUGUAGUUGAUACUCGCAAUGAAAA
..((((..((((...((....)).....))))...))))(((((((((((((((.((.((((....)))).))....((........))..)))))))))...)))))).. ( -25.30)
>DroEre_CAF1 71025 99 + 1
AUUGGCACUGGGAAAUCAGUGGGAAAAGCCCGCAGGCCAAUUGUUAGUAUCAACAGAAAUUGG------------ACCGUAAUUACUUGUAGUUGAAACUCGCAAUGGAAA
..(((((((((....)))))(((.....)))....))))(((((.(((.(((((((.(((((.------------....))))).))....))))).))).)))))..... ( -25.20)
>DroYak_CAF1 67855 111 + 1
AUUGGCACUGGGAAAUCAGUGGAAAAAGCCCACAGGCCAAUUGUUAGUAUCAACAGAAACUGGAACCUAUGUCCGACCCUAAUUACUUGUAGUUGAUACUCGCAAUGAAAA
..((((..((((...((....)).....))))...))))(((((.(((((((((......((((.......))))........((....))))))))))).)))))..... ( -28.00)
>consensus
AUUGGCACUGGGAAAUCAGUGGAAAAAGCCCGCAGGCCAUUUAUUAGUAUCAACAGAAAUUGGAACCAAUGUCCGACCAUAAUUACUUGUAGUUGAUACUCGCAAUGAAAA
..((((..((((...((....)).....))))...)))).((((((((((((((.....(((((.......))))).......((....)))))))))))...)))))... (-19.91 = -20.20 +   0.29)

alignment

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secondary structure

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dotplot

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Window 5

Location 24,568,142 – 24,568,253
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 90.27
Mean single sequence MFE -27.36
Consensus MFE -20.14
Energy contribution -22.58
Covariance contribution 2.44
Combinations/Pair 1.06
Mean z-score -1.90
Structure conservation index 0.74
SVM decision value 0.32
SVM RNA-class probability 0.687838
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24568142 111 - 27905053
UUUUCAUUGCGAGUAUCAACUACACGUAAUUAUGGUCGGACAUUGGUUCCAAUUUCUGUUGAUACUCAUAAAUGGCCCGCGGGCUUUUUCCACUGAUUUCCCAGUGCCAAU
....((((..((((((((((....(((....)))...(((.((((....)))).)))))))))))))...))))(((....)))......(((((......)))))..... ( -31.60)
>DroSec_CAF1 66401 111 - 1
UUUUCAUUGCGAGUAUCAACUACAAGUAAUUAUGGUCGGACAUUGGUUCCAAUUUCUGCUGAUACUAAUAAAUGGCCUGCGGGCUUUUUCCACUGAUUUCCCAGUGCCAAU
......(((..(((((((((((.((....)).))))((((.((((....)))).)))).)))))))..))).(((((((.(((..((.......))..)))))).)))).. ( -27.70)
>DroSim_CAF1 68571 111 - 1
UUUUCAUUGCGAGUAUCAACUACAAGUAAUUAUGGUCGGACAUUGGUUCCAAUUUCUGCUGAUACUAAUAAAUGGCCUGCGGGCUUUUUCCACUGAUUUCCCAGUGCCAAU
......(((..(((((((((((.((....)).))))((((.((((....)))).)))).)))))))..))).(((((((.(((..((.......))..)))))).)))).. ( -27.70)
>DroEre_CAF1 71025 99 - 1
UUUCCAUUGCGAGUUUCAACUACAAGUAAUUACGGU------------CCAAUUUCUGUUGAUACUAACAAUUGGCCUGCGGGCUUUUCCCACUGAUUUCCCAGUGCCAAU
......(((..(((.(((((................------------.........))))).)))..)))((((((((.(((..((.......))..)))))).))))). ( -20.41)
>DroYak_CAF1 67855 111 - 1
UUUUCAUUGCGAGUAUCAACUACAAGUAAUUAGGGUCGGACAUAGGUUCCAGUUUCUGUUGAUACUAACAAUUGGCCUGUGGGCUUUUUCCACUGAUUUCCCAGUGCCAAU
......(((..(((((((((....((.((((.(..((.......))..).)))).)))))))))))..)))((((((((.(((..((.......))..)))))).))))). ( -29.40)
>consensus
UUUUCAUUGCGAGUAUCAACUACAAGUAAUUAUGGUCGGACAUUGGUUCCAAUUUCUGUUGAUACUAAUAAAUGGCCUGCGGGCUUUUUCCACUGAUUUCCCAGUGCCAAU
......(((..(((((((((((.((....)).))))((((.((((....)))).)))).)))))))..))).(((((((.(((..((.......))..)))))).)))).. (-20.14 = -22.58 +   2.44)

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 13:29:13 2006