Locus 4641

Sequence ID 2L_DroMel_CAF1
Location 13,286,977 – 13,287,069
Length 92
Max. P 0.891187
window7328 window7329

overview

Window 8

Location 13,286,977 – 13,287,069
Length 92
Sequences 6
Columns 92
Reading direction forward
Mean pairwise identity 81.16
Mean single sequence MFE -33.92
Consensus MFE -21.65
Energy contribution -22.98
Covariance contribution 1.34
Combinations/Pair 1.26
Mean z-score -2.56
Structure conservation index 0.64
SVM decision value 0.95
SVM RNA-class probability 0.887178
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13286977 92 + 22407834
AGCCACCCAGCAACUUCGACUGCGGAACCUUAACAGAAUUCAGGGAUUCAAUAUUGAGUCCUGGCCGCAUGAGAAGUCGCUGGAGCUAGAUG
(((...(((((.(((((...(((((..((......(....).((((((((....)))))))))))))))...))))).))))).)))..... ( -35.00)
>DroSec_CAF1 41 92 + 1
AGCCACCCAGCAACUACGACUGCGGAACCUCAACAGAAUUCAGGGAUUCAAUAUUGAGUCCUGGCCGCAUGAGAAGUCGCUGGAGCUGGAGG
..(((((((((.(((.(...(((((..((((....)).....((((((((....)))))))))))))))...).))).))))).).)))... ( -32.50)
>DroSim_CAF1 39 92 + 1
AGCCACCCAGCAACUACGACUGCGGAACCUCAACAGAAUUCAGGGAUUCAAUAUUGAGUCCUGGCCGCAUGAGAAGUCGCUGGAGCUGGAGG
..(((((((((.(((.(...(((((..((((....)).....((((((((....)))))))))))))))...).))).))))).).)))... ( -32.50)
>DroEre_CAF1 40 92 + 1
GGCCACUCAGCAACUUCGACUGCGGAACCUCACCCGGAUUCAGGGAUUCAAUAUUGAGUCCGGGCCGCAAGAAAAGUCGCUCCUGGUGGUCG
(((((((.(((.((((....(((((.......(((((((((((..........))))))))))))))))....)))).)))...))))))). ( -40.01)
>DroYak_CAF1 39 92 + 1
GGCCACACAGCAACUUCGACUGCGGAACCUCAACCGAAUUCAGGGAUUCAAUAUUGAGUUUGGACCGCAUGAGAAGUCGCUGGAACUGGCGG
.((((..((((.(((((...(((((........((((((((((..........)))))))))).)))))...))))).))))....)))).. ( -34.60)
>DroAna_CAF1 40 86 + 1
GGCCACCCAACAGCUCCGCCUGCGAAACCUGGCGCGAAUUCAGGGAUUUAACAUUGUGUCCAGGUUGCAGGAAGAU------GAGCAGUUAG
((....))(((.((((..((((((..(((((((((((................))))).)))))))))))).....------)))).))).. ( -28.89)
>consensus
AGCCACCCAGCAACUUCGACUGCGGAACCUCAACAGAAUUCAGGGAUUCAAUAUUGAGUCCUGGCCGCAUGAGAAGUCGCUGGAGCUGGAGG
......(((((.(((((...(((((..........(....)..(((((((....)))))))...)))))...))))).)))))......... (-21.65 = -22.98 +   1.34)

alignment

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secondary structure

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dotplot

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Window 9

Location 13,286,977 – 13,287,069
Length 92
Sequences 6
Columns 92
Reading direction reverse
Mean pairwise identity 81.16
Mean single sequence MFE -34.34
Consensus MFE -21.55
Energy contribution -22.92
Covariance contribution 1.37
Combinations/Pair 1.30
Mean z-score -2.63
Structure conservation index 0.63
SVM decision value 0.96
SVM RNA-class probability 0.891187
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13286977 92 - 22407834
CAUCUAGCUCCAGCGACUUCUCAUGCGGCCAGGACUCAAUAUUGAAUCCCUGAAUUCUGUUAAGGUUCCGCAGUCGAAGUUGCUGGGUGGCU
.....(((((((((((((((...(((((.((((..(((....)))...))))...(((....)))..)))))...)))))))))))..)))) ( -35.50)
>DroSec_CAF1 41 92 - 1
CCUCCAGCUCCAGCGACUUCUCAUGCGGCCAGGACUCAAUAUUGAAUCCCUGAAUUCUGUUGAGGUUCCGCAGUCGUAGUUGCUGGGUGGCU
.....(((((((((((((.....(((((......(((((((..((((......)))))))))))...))))).....)))))))))..)))) ( -34.10)
>DroSim_CAF1 39 92 - 1
CCUCCAGCUCCAGCGACUUCUCAUGCGGCCAGGACUCAAUAUUGAAUCCCUGAAUUCUGUUGAGGUUCCGCAGUCGUAGUUGCUGGGUGGCU
.....(((((((((((((.....(((((......(((((((..((((......)))))))))))...))))).....)))))))))..)))) ( -34.10)
>DroEre_CAF1 40 92 - 1
CGACCACCAGGAGCGACUUUUCUUGCGGCCCGGACUCAAUAUUGAAUCCCUGAAUCCGGGUGAGGUUCCGCAGUCGAAGUUGCUGAGUGGCC
...((((....(((((((((..((((((((((((.(((............))).)))))).......))))))..)))))))))..)))).. ( -35.51)
>DroYak_CAF1 39 92 - 1
CCGCCAGUUCCAGCGACUUCUCAUGCGGUCCAAACUCAAUAUUGAAUCCCUGAAUUCGGUUGAGGUUCCGCAGUCGAAGUUGCUGUGUGGCC
..((((....((((((((((...(((((......((((((...((((......)))).))))))...)))))...))))))))))..)))). ( -37.40)
>DroAna_CAF1 40 86 - 1
CUAACUGCUC------AUCUUCCUGCAACCUGGACACAAUGUUAAAUCCCUGAAUUCGCGCCAGGUUUCGCAGGCGGAGCUGUUGGGUGGCC
(((((.((((------.....((((((((((((.(.(....(((......)))....).))))))))..)))))..)))).)))))...... ( -29.40)
>consensus
CCUCCAGCUCCAGCGACUUCUCAUGCGGCCAGGACUCAAUAUUGAAUCCCUGAAUUCGGUUGAGGUUCCGCAGUCGAAGUUGCUGGGUGGCC
......((((((((((((((...(((((.(((((.(((............))).)))))........)))))...)))))))))))..))). (-21.55 = -22.92 +   1.37)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:19 2006