Locus 1458

Sequence ID X_DroMel_CAF1
Location 4,391,320 – 4,391,440
Length 120
Max. P 0.866762
window2327 window2328

overview

Window 7

Location 4,391,320 – 4,391,440
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.63
Mean single sequence MFE -31.70
Consensus MFE -30.34
Energy contribution -30.30
Covariance contribution -0.04
Combinations/Pair 1.03
Mean z-score -1.30
Structure conservation index 0.96
SVM decision value 0.85
SVM RNA-class probability 0.866762
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4391320 120 + 22224390
ACAUACAAAAGCAGCUGUGUUGUGCCGUGGCUCGUUAAUUAAACUCAAUUGAGAACAGCUUUUUGUCAAAGCGGUUAGGCCAACAACUUGGCUUGAGUCACCCAAGUUCGACUGCAUAUA
..........((((.((.....((..(((((((..........(((....)))(((.(((((.....))))).)))(((((((....)))))))))))))).))....)).))))..... ( -31.90)
>DroSec_CAF1 3035 118 + 1
ACAUACAAAAGCAGCUGUGUUGUGCCGUGGCUCGUUAAUUAAACUCAAUUGAGAACAGCUUUUUGUCAAAGCGGUUAGGCCAACAACUUGGCUUGAGUCACCCAAGUUCGACUGCAUA--
..........((((.((.....((..(((((((..........(((....)))(((.(((((.....))))).)))(((((((....)))))))))))))).))....)).))))...-- ( -31.90)
>DroSim_CAF1 3053 118 + 1
ACAUACAAAAGCAGCUGUGUUGUGCCGUGGCUCGUUAAUUAAACUCAAUUGAGAACAGCUUUUUGUCAAAGCGGUUAGGCCAACAACUUGGCUUGAGUCACCCAAGUUCGACUGCAUA--
..........((((.((.....((..(((((((..........(((....)))(((.(((((.....))))).)))(((((((....)))))))))))))).))....)).))))...-- ( -31.90)
>DroEre_CAF1 3166 118 + 1
ACAUACAAAAGCAGCUGUGUUAUGCCGUGGCUCGUUAAUUAAACUCAAUUGAGAACAGCUUUUUGUCAGAGCGGUUAGGCCAAUAACUUGGCUUGAGUCACCCAAGUUCGACUGCAUA--
..........((((.((..((.((..(((((((..........(((....)))(((.(((((.....))))).)))(((((((....)))))))))))))).))))..)).))))...-- ( -31.10)
>DroYak_CAF1 3228 118 + 1
ACAUAUAAAAGCAGCUGUGUUGUACCGCGGCUCGUUAAUUAAACUCAAUUGAGAACAGCUUUUUGUCAGAGCGGUUAGGCCAAUAACUUGGCUUGAGUCACCGAAGUUCGACUGCAUA--
......(((((((((((((......)))))))...........(((....)))....)))))).(((.(((((((((((((((....))))))))....)))...)))))))......-- ( -31.70)
>consensus
ACAUACAAAAGCAGCUGUGUUGUGCCGUGGCUCGUUAAUUAAACUCAAUUGAGAACAGCUUUUUGUCAAAGCGGUUAGGCCAACAACUUGGCUUGAGUCACCCAAGUUCGACUGCAUA__
..........((((.((..((.....(((((((..........(((....)))(((.(((((.....))))).)))(((((((....))))))))))))))...))..)).))))..... (-30.34 = -30.30 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 8

Location 4,391,320 – 4,391,440
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.63
Mean single sequence MFE -31.24
Consensus MFE -28.06
Energy contribution -28.74
Covariance contribution 0.68
Combinations/Pair 1.06
Mean z-score -1.25
Structure conservation index 0.90
SVM decision value 0.16
SVM RNA-class probability 0.612582
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4391320 120 - 22224390
UAUAUGCAGUCGAACUUGGGUGACUCAAGCCAAGUUGUUGGCCUAACCGCUUUGACAAAAAGCUGUUCUCAAUUGAGUUUAAUUAACGAGCCACGGCACAACACAGCUGCUUUUGUAUGU
((((.(((((.((((((((.(......).)))))))(((((((.....(((((.....))))).((((((....))(((.....)))))))...))).)))).).)))))...))))... ( -33.90)
>DroSec_CAF1 3035 118 - 1
--UAUGCAGUCGAACUUGGGUGACUCAAGCCAAGUUGUUGGCCUAACCGCUUUGACAAAAAGCUGUUCUCAAUUGAGUUUAAUUAACGAGCCACGGCACAACACAGCUGCUUUUGUAUGU
--...(((((.((((((((.(......).)))))))(((((((.....(((((.....))))).((((((....))(((.....)))))))...))).)))).).))))).......... ( -33.30)
>DroSim_CAF1 3053 118 - 1
--UAUGCAGUCGAACUUGGGUGACUCAAGCCAAGUUGUUGGCCUAACCGCUUUGACAAAAAGCUGUUCUCAAUUGAGUUUAAUUAACGAGCCACGGCACAACACAGCUGCUUUUGUAUGU
--...(((((.((((((((.(......).)))))))(((((((.....(((((.....))))).((((((....))(((.....)))))))...))).)))).).))))).......... ( -33.30)
>DroEre_CAF1 3166 118 - 1
--UAUGCAGUCGAACUUGGGUGACUCAAGCCAAGUUAUUGGCCUAACCGCUCUGACAAAAAGCUGUUCUCAAUUGAGUUUAAUUAACGAGCCACGGCAUAACACAGCUGCUUUUGUAUGU
--(((((((((((((((((.(......).)))))))...(((......))).))))....((((((.(((....)))............((....)).....)))))).....)))))). ( -29.00)
>DroYak_CAF1 3228 118 - 1
--UAUGCAGUCGAACUUCGGUGACUCAAGCCAAGUUAUUGGCCUAACCGCUCUGACAAAAAGCUGUUCUCAAUUGAGUUUAAUUAACGAGCCGCGGUACAACACAGCUGCUUUUAUAUGU
--...(((((((.....))(((......(((((....)))))...(((((...((((......))))(((....)))...............)))))....))).))))).......... ( -26.70)
>consensus
__UAUGCAGUCGAACUUGGGUGACUCAAGCCAAGUUGUUGGCCUAACCGCUUUGACAAAAAGCUGUUCUCAAUUGAGUUUAAUUAACGAGCCACGGCACAACACAGCUGCUUUUGUAUGU
.....(((((.((((((((.(......).)))))))(((((((.....(((((.....))))).((((((....))(((.....)))))))...))).)))).).))))).......... (-28.06 = -28.74 +   0.68)

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 10:09:56 2006