Locus 6832

Sequence ID X_DroMel_CAF1
Location 16,998,995 – 16,999,143
Length 148
Max. P 0.963846
window11189 window11190

overview

Window 9

Location 16,998,995 – 16,999,107
Length 112
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 93.10
Mean single sequence MFE -35.00
Consensus MFE -31.95
Energy contribution -31.57
Covariance contribution -0.38
Combinations/Pair 1.06
Mean z-score -2.14
Structure conservation index 0.91
SVM decision value 1.56
SVM RNA-class probability 0.963846
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16998995 112 + 22224390
AUAAUCGAUAAAUCCAAGCGUCAAACACCUUGGUCAGUUUCUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUU--------CGGCUGAACGGCGAAAUGUCGGUUGUAGC
(((((((((....(((((.((.....)))))))...(((((........((((.((((((((.....)))))))).))))...--------..(((....)))))))))))))))))... ( -31.30)
>DroSec_CAF1 4121 112 + 1
AUAAUCGAUAAAUCCAAGCGGCAAACACCUUGGCCAGUUUCUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUU--------CGGCCGAACGGCGAAAUGUCGGUUGUAGU
((((((((((...(((.((((......(((((((((...........))))))).))...(((....)))..)))))))..((--------((.((....)))))).))))))))))... ( -35.30)
>DroEre_CAF1 3945 119 + 1
AUAAUCGAUAAAUCCAAGCGGCAAACACCUUGGCCAGUUUCUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUUCGCUGGCUUGGCUGAACGGCGAAAUGUCGGUUGUAG-
((((((((((..((((((((((.....(((((((((...........))))))).))......(((((.......)))))....))).)))))(((....)))))..))))))))))..- ( -39.40)
>DroYak_CAF1 3946 112 + 1
AUAAUCGAUAAAUCCAAGCGGCAAACACCUUGGCCAGUUUCUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUU--------UGGCUCAACGGCGAAAUGUCGGUUGUACU
((((((..........(((((......(((((((((...........))))))).))...(((....)))..)))))((((((--------(.(((....))).)))))))))))))... ( -34.00)
>consensus
AUAAUCGAUAAAUCCAAGCGGCAAACACCUUGGCCAGUUUCUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUU________CGGCUGAACGGCGAAAUGUCGGUUGUAGU
((((((((((...(((.(((.......(((((((((...........))))))).))...(((....)))...))))))..............(((....)))....))))))))))... (-31.95 = -31.57 +  -0.38)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,999,035 – 16,999,143
Length 108
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 90.96
Mean single sequence MFE -35.00
Consensus MFE -27.91
Energy contribution -27.47
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.84
Structure conservation index 0.80
SVM decision value 0.51
SVM RNA-class probability 0.765354
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16999035 108 + 22224390
CUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUU--------CGGCUGAACGGCGAAAUGUCGGUUGUAGCUAUG-GACUGAAGGUCGGAAAUGUCCGGAAUUCCAUA
.............(((((((((((.....((((((((((((((--------..(((....)))..)))))))))..........-(((.....))).)))))...))))))))))). ( -33.30)
>DroSec_CAF1 4161 109 + 1
CUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUU--------CGGCCGAACGGCGAAAUGUCGGUUGUAGUUAUGGGACUGAAGGUCGGAAAUGUCCGGAAUUCCAUA
.............(((((((((((.....((((((((((((((--------..(((....)))..)))))))))...........(((.....))).)))))...))))))))))). ( -35.30)
>DroEre_CAF1 3985 115 + 1
CUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUUCGCUGGCUUGGCUGAACGGCGAAAUGUCGGUUGUAG-UAUG-GACUGAAGGUCGGAAAUGCCCGGAAUUCCAUA
.............(((((((((((.....(((((((((((((((((((...........))))).))))))))).....-....-(((.....))).)))))...))))))))))). ( -37.20)
>DroYak_CAF1 3986 108 + 1
CUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUU--------UGGCUCAACGGCGAAAUGUCGGUUGUACUUAUG-GACUGAAGGUCGGAAGUGCCAGGAAUUUCAUG
.............((((((((((...........(((((((((--------(.(((....))).)))))))))).((((((.(.-(((.....))).)))))))..)))))))))). ( -34.20)
>consensus
CUUUUUAUGGCCAAUGGAAUUUCGUUAGAAUUUCGCUGGCAUU________CGGCUGAACGGCGAAAUGUCGGUUGUAGUUAUG_GACUGAAGGUCGGAAAUGCCCGGAAUUCCAUA
.............(((((((((((((((.......)))))............(((....((((......((((((.((....)).))))))..)))).....))).)))))))))). (-27.91 = -27.47 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:03 2006