Locus 8723

Sequence ID 3R_DroMel_CAF1
Location 23,304,787 – 23,304,907
Length 120
Max. P 0.922359
window14008 window14009

overview

Window 8

Location 23,304,787 – 23,304,907
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.17
Mean single sequence MFE -36.50
Consensus MFE -32.46
Energy contribution -32.54
Covariance contribution 0.08
Combinations/Pair 1.08
Mean z-score -1.24
Structure conservation index 0.89
SVM decision value 0.30
SVM RNA-class probability 0.679641
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23304787 120 + 27905053
UCUCUUUAAUUUGGAUGGACCCCAGUGGCGUUUGCUUAGGAGCAAACUAUCCUCGACAUUCACGUCGGGCAAAAUGAAGUUCAUGUAUCCGACGGUUGUGUCCGUGGCUGAGGAAUUUAU
...........(((((...((.((((.(((((((((....))))))).......(((((...(((((((....(((.....)))...)))))))...))))).)).)))).)).))))). ( -39.10)
>DroSec_CAF1 102201 120 + 1
UCUCUUUAAUCUGGAUGGACCCCAGUGGCGUUUGCUAAGGAGCAAGCUAUCCCCGACUUUCACGUCGGGCAAAAUGAAGUUCAUGUAUCCGACGAUUGUGUCGGUGGCUGAGGAAUUAAU
..((((((..(((.((((((..((.((..(((((((....)))))))....((((((......))))))))...))..)))))).)).((((((....)))))).)..))))))...... ( -38.70)
>DroSim_CAF1 106395 120 + 1
UCUCUUUAAUCUGGAUGGACCCCAGUGGCGUUUGCUAAGGAGCAAGCUAUCCCCGACUUUCACGUCGGGCAAAAUGAAGUUCAUGUAUCCGACGAUUGUGUCGGUGGCUGAGGAAUUUAU
..((((((..(((.((((((..((.((..(((((((....)))))))....((((((......))))))))...))..)))))).)).((((((....)))))).)..))))))...... ( -38.70)
>DroEre_CAF1 108598 120 + 1
UCUCUUUAAUUUGGAUGGACCCCAGUGGCGUUUGCUCAGAAGCAAACUAUCCCCCACUUUCACGUCCGGCAAAAUGAAGUUCAUGUAUCCGACAGUUGUGUCGGUGGCUGAGGAAUUUAU
...(((((.((((..(((((...(((((.(((((((....)))))))......))))).....))))).)))).)))))((((.((..((((((....))))))..))))))........ ( -34.60)
>DroYak_CAF1 112570 120 + 1
UCUCUUUAAUUUGGAUGGACCCCAGUGGCGUUUGCUCAGAAGCAAACUAUCCUCGACUUUUACGUCCGGCAAAAUGAAGUUCAUGUAUCCGACAGUUGUGUCGGUGGCUGAGGAAUUUAU
..((((((......((((((..((.((.((((((((....))))))).......(((......))).).))...))..))))))((..((((((....))))))..))))))))...... ( -31.40)
>consensus
UCUCUUUAAUUUGGAUGGACCCCAGUGGCGUUUGCUAAGGAGCAAACUAUCCCCGACUUUCACGUCGGGCAAAAUGAAGUUCAUGUAUCCGACGGUUGUGUCGGUGGCUGAGGAAUUUAU
..((((((......((((((..((.((..(((((((....)))))))....((((((......))))))))...))..))))))((..((((((....))))))..))))))))...... (-32.46 = -32.54 +   0.08)

alignment

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secondary structure

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dotplot

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Window 9

Location 23,304,787 – 23,304,907
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.17
Mean single sequence MFE -33.20
Consensus MFE -28.94
Energy contribution -29.90
Covariance contribution 0.96
Combinations/Pair 1.03
Mean z-score -1.57
Structure conservation index 0.87
SVM decision value 1.15
SVM RNA-class probability 0.922359
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23304787 120 - 27905053
AUAAAUUCCUCAGCCACGGACACAACCGUCGGAUACAUGAACUUCAUUUUGCCCGACGUGAAUGUCGAGGAUAGUUUGCUCCUAAGCAAACGCCACUGGGGUCCAUCCAAAUUAAAGAGA
.......((((((.....((((....((((((....(((.....))).....))))))....))))..((...(((((((....))))))).)).))))))................... ( -33.20)
>DroSec_CAF1 102201 120 - 1
AUUAAUUCCUCAGCCACCGACACAAUCGUCGGAUACAUGAACUUCAUUUUGCCCGACGUGAAAGUCGGGGAUAGCUUGCUCCUUAGCAAACGCCACUGGGGUCCAUCCAGAUUAAAGAGA
........(((.....(((((.....((((((....(((.....))).....)))))).....)))))((...(.(((((....))))).).)).(((((.....)))))......))). ( -34.10)
>DroSim_CAF1 106395 120 - 1
AUAAAUUCCUCAGCCACCGACACAAUCGUCGGAUACAUGAACUUCAUUUUGCCCGACGUGAAAGUCGGGGAUAGCUUGCUCCUUAGCAAACGCCACUGGGGUCCAUCCAGAUUAAAGAGA
........(((.....(((((.....((((((....(((.....))).....)))))).....)))))((...(.(((((....))))).).)).(((((.....)))))......))). ( -34.10)
>DroEre_CAF1 108598 120 - 1
AUAAAUUCCUCAGCCACCGACACAACUGUCGGAUACAUGAACUUCAUUUUGCCGGACGUGAAAGUGGGGGAUAGUUUGCUUCUGAGCAAACGCCACUGGGGUCCAUCCAAAUUAAAGAGA
.......((((((((.((((((....))))))............((((((..(....)..))))))))((...(((((((....))))))).)).))))))................... ( -32.50)
>DroYak_CAF1 112570 120 - 1
AUAAAUUCCUCAGCCACCGACACAACUGUCGGAUACAUGAACUUCAUUUUGCCGGACGUAAAAGUCGAGGAUAGUUUGCUUCUGAGCAAACGCCACUGGGGUCCAUCCAAAUUAAAGAGA
........(((.....((((((....))))))....(((.((((((........(((......)))..((...(((((((....))))))).))..)))))).)))..........))). ( -32.10)
>consensus
AUAAAUUCCUCAGCCACCGACACAACCGUCGGAUACAUGAACUUCAUUUUGCCCGACGUGAAAGUCGGGGAUAGUUUGCUCCUGAGCAAACGCCACUGGGGUCCAUCCAAAUUAAAGAGA
.......((((((...(((((.....((((((....(((.....)))....)).)))).....)))))((...(((((((....))))))).)).))))))................... (-28.94 = -29.90 +   0.96)

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 13:18:08 2006